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
MTOR	2475	genome.wustl.edu	37	1	11308098	11308098	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004958.3	-1	reviewed	p.K298	1.000	210	0%	296	27.7%	0	-	-	-	-	superfamily_ARM-type_fold
EIF4G3	8672	genome.wustl.edu	37	1	21133927	21133927	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003760.3	-1	validated	p.K1548T	1.000	149	0%	285	24.2%	52	9.6%	probably_damaging(0.995)	tolerated(0.7)	neutral(0.460)	HMMPfam_W2,HMMSmart_SM00515,superfamily_ARM repeat
ZBTB40	9923	genome.wustl.edu	37	1	22850799	22850799	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083621.1	+1	validated	p.K1129	1.000	85	0%	68	39.7%	1	0%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ARID1A	8289	genome.wustl.edu	37	1	27057727	27057727	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006015.4	+1	reviewed	p.Q479*	1.000	652	0%	700	42%	0	-	-	-	-	NULL
CSMD2	114784	genome.wustl.edu	37	1	34128619	34128619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.G1336R	1.000	192	0%	120	36.7%	0	-	probably_damaging(0.982)	tolerated(0.29)	neutral(0.456)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
MANEAL	149175	genome.wustl.edu	37	1	38265666	38265666	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113482.1	+1	validated	p.Q389*	1.000	146	0%	141	13.5%	4	0%	-	-	-	NULL
COL24A1	255631	genome.wustl.edu	37	1	86591140	86591140	+	Silent	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152890.5	-1	validated	p.I293	0.000	239	0%	250	18.8%	0	-	-	-	-	NULL
DPYD	1806	genome.wustl.edu	37	1	97915633	97915633	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000110.3	-1	reviewed	p.K629N	0.932	138	0%	249	38.2%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF51395
VCAM1	7412	genome.wustl.edu	37	1	101190363	101190363	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001078.2	+1	reviewed	p.R282M	0.917	136	0%	208	16.8%	0	-	probably_damaging(0.997)	tolerated(0.05)	deleterious(0.811)	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
RSBN1	54665	genome.wustl.edu	37	1	114308684	114308684	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018364.3	-1	validated	p.P776H	0.998	170	0%	150	16%	3	33.3%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SYT6	148281	genome.wustl.edu	37	1	114640439	114640439	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205848.2	-1	validated	p.G390	0.946	226	0%	158	33.5%	0	-	-	-	-	HMMSmart_C2,superfamily_C2_CaLB
TRIM33	51592	genome.wustl.edu	37	1	114945458	114945458	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015906.3	-1	reviewed	p.V939D	1.000	122	0%	302	31.5%	12	16.6%	probably_damaging(0.999)	tolerated(0.09)	deleterious(0.787)	superfamily_Bromodomain
ECM1	1893	genome.wustl.edu	37	1	150485243	150485243	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004425.3	+1	reviewed	p.C449	1.000	409	0%	369	29%	57	35%	-	-	-	HMMPfam_ECM1
FLG	2312	genome.wustl.edu	37	1	152279226	152279226	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.Q2712H	0.000	1334	0%	618	12%	0	-	unknown(0)	tolerated(0.05)	-	NULL
FLG	2312	genome.wustl.edu	37	1	152282489	152282489	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.Q1625*	0.000	412	0%	184	13.6%	0	-	-	-	-	NULL
FCRL3	115352	genome.wustl.edu	37	1	157669503	157669503	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052939.3	-1	reviewed	e2-1	0.999	48	0%	66	15.2%	0	-	-	-	-	-
IGSF9	57549	genome.wustl.edu	37	1	159901641	159901641	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135050.1	-1	validated	p.S441	0.995	118	0%	117	42.7%	3	0%	-	-	-	HMMSmart_IGc2,HMMPfam_ig,superfamily_SSF48726
HMCN1	83872	genome.wustl.edu	37	1	186092304	186092304	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.A4151T	0.927	197	0%	136	15.4%	0	-	benign(0.021)	tolerated(0.48)	neutral(0.011)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
LHX9	56956	genome.wustl.edu	37	1	197889121	197889121	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020204.2	+1	reviewed	p.P65L	1.000	101	0%	104	40.4%	0	-	possibly_damaging(0.661)	deleterious(0.02)	deleterious(0.617)	superfamily_Glucocorticoid receptor-like (DNA-binding domain)
ADORA1	134	genome.wustl.edu	37	1	203134594	203134594	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000674.2	+1	reviewed	p.F183V	1.000	72	0%	57	26.3%	0	-	possibly_damaging(0.555)	deleterious(0)	deleterious(0.634)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ATP2B4	493	genome.wustl.edu	37	1	203668778	203668778	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001684.3	+1	reviewed	p.N195fs	0.974	-	-	-	-	-	-	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_Calcium ATPase transduction domain A,superfamily_Calcium ATPase transmembrane domain M
RAB7L1	8934	genome.wustl.edu	37	1	205740628	205740628	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135662.1	-1	validated	p.P117L	0.816	493	0%	720	16.3%	0	-	benign(0.059)	deleterious(0.01)	neutral(0.410)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
PTPN14	5784	genome.wustl.edu	37	1	214576291	214576292	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005401.4	-1	reviewed	p.L172fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_FERM_M,superfamily_FERM_3-hlx,HMMSmart_B41
RAB3GAP2	25782	genome.wustl.edu	37	1	220355697	220355697	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012414.3	-1	reviewed	e21-1	1.000	217	0.5%	454	14.8%	0	-	-	-	-	-
ARF1	375	genome.wustl.edu	37	1	228285405	228285405	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024226.1	+1	reviewed	p.A125T	1.000	47	0%	41	39%	305	27.2%	possibly_damaging(0.939)	deleterious(0)	deleterious(0.829)	HMMSmart_SM00175,HMMSmart_SM00178,HMMSmart_SM00177,HMMPfam_Arf,superfamily_P-loop containing nucleoside triphosphate hydrolases
SIPA1L2	57568	genome.wustl.edu	37	1	232619570	232619570	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020808.3	-1	validated	p.F650C	1.000	204	0%	236	49.6%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Rap_GAP,superfamily_Rap/Ran-GAP (Pfam 02145)
KIAA1804	84451	genome.wustl.edu	37	1	233514819	233514819	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032435.2	+1	validated	p.W689*	0.898	191	0%	206	34.5%	2	0%	-	-	-	NULL
MAP1LC3C	440738	genome.wustl.edu	37	1	242159597	242159597	+	Silent	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004343.2	-1	validated	p.I104	0.999	97	0%	113	39.8%	0	-	-	-	-	HMMPfam_MAP1_LC3,superfamily_SSF54236
CNST	163882	genome.wustl.edu	37	1	246810609	246810609	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152609.2	+1	validated	p.A369V	0.006	344	0%	211	14.2%	12	0%	possibly_damaging(0.661)	deleterious(0.04)	deleterious(0.583)	NULL
ALLC	55821	genome.wustl.edu	37	2	3749152	3749154	+	In_Frame_Del	DEL	GAA	GAA	-	rs66473381	byCluster;by1000genomes	TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	GAA	GAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018436.3	+1	validated	p.E303in_frame_del	0.959:0.973:0.963	-	-	-	-	-	-	-	-	-	superfamily_Gal_bind_like,HMMPfam_Allantoicase
TAF1B	9014	genome.wustl.edu	37	2	10045015	10045015	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005680.2	+1	reviewed	p.K279*	0.189	89	0%	174	31.6%	3	0%	-	-	-	NULL
C2orf44	80304	genome.wustl.edu	37	2	24261271	24261271	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025203.2	-1	validated	p.L365S	1.000	219	0%	260	41.2%	0	-	possibly_damaging(0.911)	tolerated(0.08)	deleterious(0.663)	NULL
PLB1	151056	genome.wustl.edu	37	2	28802500	28802500	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153021.4	+1	validated	p.H498Y	0.913	134	0%	157	42%	0	-	benign(0.046)	deleterious(0.01)	neutral(0.408)	HMMPfam_Lipase_GDSL,superfamily_SGNH hydrolase
ALK	238	genome.wustl.edu	37	2	29449904	29449904	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004304.3	-1	reviewed	p.Y984C	1.000	272	0%	229	19.2%	0	-	probably_damaging(0.987)	tolerated(0.17)	deleterious(0.495)	NULL
EPAS1	2034	genome.wustl.edu	37	2	46574123	46574123	+	Silent	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001430.4	+1	reviewed	p.S46	0.893	95	0%	137	26.3%	5	0%	-	-	-	HMMPfam_HLH,HMMSmart_HLH,superfamily_HLH_basic
EXOC6B	23233	genome.wustl.edu	37	2	72742248	72742248	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015189.1	-1	validated	p.R308L	1.000	40	0%	50	14%	0	-	probably_damaging(0.965)	deleterious(0.01)	deleterious(0.812)	NULL
TET3	200424	genome.wustl.edu	37	2	74320716	74320716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144993.1	+1	provisional	p.A929T	1.000	48	0%	39	38.5%	0	-	benign(0.003)	deleterious(0)	neutral(0.445)	NULL
IGKV1D-8	28904	genome.wustl.edu	37	2	90259797	90259797	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000471857	+1	known	p.Q8H	0.170	301	0%	300	39.3%	3	0%	benign(0.086)	tolerated(0.15)	neutral(0.247)	NULL
TEKT4	150483	genome.wustl.edu	37	2	95542422	95542422	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144705.2	+1	provisional	p.A406P	0.548	47	0%	25	32%	4	0%	benign(0.026)	deleterious(0.02)	neutral(0.384)	HMMPfam_Tektin
R3HDM1	23518	genome.wustl.edu	37	2	136396589	136396589	+	Silent	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429703	+1	known	p.E61*	0.946	248	0%	293	46.8%	4	0%	-	-	-	NULL
ACVR1	90	genome.wustl.edu	37	2	158617533	158617533	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105.4	-1	reviewed	p.R375C	1.000	123	0%	165	23%	10	10%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_Kinase_like,HMMPfam_Pkinase
DPP4	1803	genome.wustl.edu	37	2	162865770	162865770	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001935.3	-1	reviewed	p.R623Q	0.996	249	0%	316	31.6%	7	28.5%	possibly_damaging(0.931)	deleterious(0.01)	deleterious(0.783)	HMMPfam_Peptidase_S9,PatternScan_PRO_ENDOPEP_SER,superfamily_alpha/beta-Hydrolases
TTN	7273	genome.wustl.edu	37	2	179418438	179418438	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.A27195V	1.000	153	0%	134	12.7%	0	-	probably_damaging(0.99)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179596486	179596486	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E4462K	0.826	225	0%	221	21.7%	0	-	unknown(0)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
CALCRL	10203	genome.wustl.edu	37	2	188223835	188223835	+	Silent	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005795.4	-1	validated	p.T288	0.016	205	0%	295	13.9%	0	-	-	-	-	HMMPfam_7tm_2
CHPF	79586	genome.wustl.edu	37	2	220405041	220405041	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024536.5	-1	validated	p.T464	0.474	19	0%	59	20.3%	136	11%	-	-	-	HMMPfam_CHGN
DOCK10	55619	genome.wustl.edu	37	2	225717807	225717807	+	Missense_Mutation	SNP	G	G	T	rs181363845	by1000genomes	TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014689.2	-1	validated	p.P641T	1.000	117	0%	170	36.5%	0	-	possibly_damaging(0.935)	tolerated(0.28)	neutral(0.412)	NULL
NCL	4691	genome.wustl.edu	37	2	232325406	232325420	+	In_Frame_Del	DEL	TCATCATCTTCATCA	TCATCATCTTCATCA	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	TCATCATCTTCATCA	TCATCATCTTCATCA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005381.2	-1	reviewed	p.DDEDD257in_frame_del	0.705:0.700:0.008:0.111:0.126:0.002:0.942:0.946:0.015:0.755:0.774:0.002:0.413:0.424:0.000	-	-	-	-	-	-	-	-	-	NULL
GIGYF2	26058	genome.wustl.edu	37	2	233704621	233704621	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001103147.1	+1	reviewed	p.L965fs	0.002	-	-	-	-	-	-	-	-	-	NULL
ITPR1	3708	genome.wustl.edu	37	3	4725354	4725354	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099952.2	+1	reviewed	p.Q1115K	1.000	542	0%	602	36.7%	0	-	benign(0.187)	deleterious(0.03)	neutral(0.382)	NULL
TMEM43	79188	genome.wustl.edu	37	3	14174081	14174081	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024334.2	+1	reviewed	p.T143M	0.998	36	0%	23	30.4%	15	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_DUF1625
CTNNB1	1499	genome.wustl.edu	37	3	41266101	41266101	+	Missense_Mutation	SNP	C	C	T	rs121913400	byCluster	TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098209.1	+1	reviewed	p.S33F	1.000	46	0%	112	38.4%	36	13.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
IP6K1	9807	genome.wustl.edu	37	3	49764946	49764946	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153273.3	-1	reviewed	p.L312P	1.000	91	0%	64	32.8%	10	10%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_IPK,superfamily_SAICAR synthase-like
PRKCD	5580	genome.wustl.edu	37	3	53215569	53215569	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006254.3	+1	reviewed	p.I162	0.643	151	0%	103	12.6%	18	22.2%	-	-	-	HMMPfam_C1_1,HMMSmart_C1,PatternScan_ZF_DAG_PE_1,superfamily_SSF57889
FLNB	2317	genome.wustl.edu	37	3	58108869	58108869	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001457.3	+1	reviewed	p.A1059V	1.000	182	0%	141	40.4%	4	0%	possibly_damaging(0.875)	deleterious(0.01)	deleterious(0.746)	HMMSmart_IG_FLMN,superfamily_Ig_E-set,HMMPfam_Filamin
SUCLG2	8801	genome.wustl.edu	37	3	67548645	67548645	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003848.3	-1	reviewed	p.D278H	1.000	104	0%	129	41.1%	15	40%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_SSF56059
ATR	545	genome.wustl.edu	37	3	142224146	142224146	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001184.3	-1	reviewed	e29-1	1.000	231	0%	360	40%	4	100%	-	-	-	-
PLD1	5337	genome.wustl.edu	37	3	171455752	171455752	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002662.3	-1	validated	p.T30	0.214	101	0%	156	17.3%	0	-	-	-	-	NULL
EIF4G1	1981	genome.wustl.edu	37	3	184041616	184041616	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182917.3	+1	reviewed	p.M775V	1.000	123	0%	161	45.3%	30	10%	possibly_damaging(0.9)	deleterious(0.05)	deleterious(0.702)	HMMPfam_MIF4G,HMMSmart_SM00543,superfamily_ARM repeat
FAM193A	8603	genome.wustl.edu	37	4	2659552	2659552	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003704.3	+1	validated	p.R154H	1.000	268	0%	486	17.7%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ABLIM2	84448	genome.wustl.edu	37	4	8037979	8037979	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130083.1	-1	validated	p.A315V	0.999	43	0%	58	15.5%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
DRD5	1816	genome.wustl.edu	37	4	9784905	9784905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000798.4	+1	reviewed	p.V418I	0.960	113	0%	103	46.6%	0	-	benign(0.038)	tolerated(0.43)	neutral(0.015)	NULL
BOD1L	259282	genome.wustl.edu	37	4	13571696	13571696	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148894.2	-1	validated	p.G3032V	0.157	36	0%	64	12.5%	4	0%	possibly_damaging(0.8)	deleterious(0)	deleterious(0.746)	NULL
SLIT2	9353	genome.wustl.edu	37	4	20525450	20525450	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004787.1	+1	provisional	p.L400I	1.000	309	0%	493	36.5%	0	-	possibly_damaging(0.697)	tolerated(0.09)	deleterious(0.546)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00365,superfamily_L domain-like
DCLK2	166614	genome.wustl.edu	37	4	151023705	151023705	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040260.2	+1	validated	p.S166Y	1.000	190	0%	286	13.6%	0	-	possibly_damaging(0.76)	deleterious(0.03)	deleterious(0.645)	superfamily_Doublecortin (DC)
FHDC1	85462	genome.wustl.edu	37	4	153893580	153893580	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033393.2	+1	validated	p.D424Y	0.610	124	0%	94	10.6%	1	0%	benign(0.302)	deleterious(0.02)	deleterious(0.477)	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
UFSP2	55325	genome.wustl.edu	37	4	186336330	186336330	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000511485	-1	known	p.P135S	0.877	72	1.4%	211	43.6%	10	50%	-	-	-	NULL
IRX1	79192	genome.wustl.edu	37	5	3599574	3599574	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024337.3	+1	validated	p.L171H	1.000	35	0%	28	50%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
AGXT2	64902	genome.wustl.edu	37	5	35025869	35025869	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031900.3	-1	reviewed	p.E321G	1.000	87	0%	70	38.6%	0	-	probably_damaging(0.979)	deleterious(0)	deleterious(0.867)	HMMPfam_Aminotran_3,PatternScan_AA_TRANSFER_CLASS_3,superfamily_PyrdxlP-dep_Trfase_major
C5orf51	285636	genome.wustl.edu	37	5	41917324	41917324	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175921.4	+1	validated	p.G270*	1.000	141	0%	250	39.6%	0	-	-	-	-	NULL
CCNO	10309	genome.wustl.edu	37	5	54527286	54527286	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021147.3	-1	validated	p.V324M	1.000	16	0%	21	57.1%	26	34.6%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_SM00385,superfamily_Cyclin-like
PIK3R1	5295	genome.wustl.edu	37	5	67589224	67589225	+	Frame_Shift_Del	DEL	AA	AA	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	AA	AA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181523.1	+1	reviewed	p.L404fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
PIK3R1	5295	genome.wustl.edu	37	5	67589227	67589227	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181523.1	+1	reviewed	p.N406fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
SNX2	6643	genome.wustl.edu	37	5	122152722	122152722	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003100.2	+1	reviewed	p.A304V	1.000	50	0%	55	18.2%	30	20%	benign(0.003)	tolerated(0.53)	neutral(0.007)	HMMPfam_Vps5
ZNF608	57507	genome.wustl.edu	37	5	123984315	123984315	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020747.2	-1	validated	p.E588K	1.000	277	0%	234	31.2%	0	-	possibly_damaging(0.892)	deleterious(0.02)	deleterious(0.734)	NULL
PCDHA12	56137	genome.wustl.edu	37	5	140255672	140255672	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018903.2	+1	reviewed	p.T205	0.000	104	0%	75	37.3%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA5	56110	genome.wustl.edu	37	5	140744632	140744632	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018918.2	+1	reviewed	p.S245	0.000	118	0%	116	31.9%	0	-	-	-	-	superfamily_Cadherin-like
PCDHGA7	56108	genome.wustl.edu	37	5	140764619	140764619	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018920.2	+1	reviewed	p.R718H	0.979	88	0%	57	36.8%	1	0%	possibly_damaging(0.496)	tolerated(0.15)	neutral(0.406)	NULL
PCDHGB5	56101	genome.wustl.edu	37	5	140779911	140779911	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018925.2	+1	reviewed	p.Y739	0.997	277	0%	235	44.3%	0	-	-	-	-	NULL
RBM27	54439	genome.wustl.edu	37	5	145641185	145641185	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018989.1	+1	validated	p.V669A	0.998	203	0%	308	11.4%	2	0%	possibly_damaging(0.792)	deleterious(0)	deleterious(0.742)	HMMSmart_RRM,superfamily_SSF54928
SERPINB9	5272	genome.wustl.edu	37	6	2890552	2890552	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004155.4	-1	validated	p.G326C	1.000	261	0%	330	17.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SLC22A23	63027	genome.wustl.edu	37	6	3298418	3298418	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015482.1	-1	validated	p.T373A	1.000	106	0%	130	23.1%	1	0%	possibly_damaging(0.862)	tolerated(0.12)	deleterious(0.594)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
HIVEP1	3096	genome.wustl.edu	37	6	12121524	12121524	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002114.2	+1	validated	p.G499V	0.496	131	0%	134	11.9%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	NULL
OR2J1	442185	genome.wustl.edu	37	6	29068859	29068859	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377171	+1	known	p.I47S	0.033	445	0%	506	14.2%	0	-	benign(0.258)	deleterious(0)	deleterious(0.472)	HMMPfam_7tm_1,superfamily_SSF81321
OR10C1	442194	genome.wustl.edu	37	6	29385295	29385295	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000383554	+1	known	p.L80P	0.980	260	0.4%	190	18.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
PPP1R18	170954	genome.wustl.edu	37	6	30644948	30644948	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000376424	-1	known	p.A341T	0.987	34	0%	33	21.2%	23	17.3%	unknown(0)	-	-	NULL
KHDRBS2	202559	genome.wustl.edu	37	6	62757794	62757794	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152688.2	-1	validated	p.D109Y	1.000	210	0.5%	361	41%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_KH,HMMPfam_KH_1,superfamily_SSF54791
SYNE1	23345	genome.wustl.edu	37	6	152546854	152546854	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	e114+2	1.000	224	0%	364	16.8%	0	-	-	-	-	-
PARK2	5071	genome.wustl.edu	37	6	161781215	161781215	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004562.2	-1	reviewed	p.A397V	0.261	127	0%	160	30.6%	0	-	possibly_damaging(0.952)	tolerated(0.1)	deleterious(0.682)	NULL
SNX8	29886	genome.wustl.edu	37	7	2309275	2309275	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013321.1	-1	provisional	e5-1	1.000	38	0%	70	10%	0	-	-	-	-	-
TNRC18	84629	genome.wustl.edu	37	7	5352659	5352659	+	Missense_Mutation	SNP	G	G	T	rs138591330	by1000genomes	TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399544	-1	known	p.P1134H	0.007	4	0.000	11	0.455	8	62.5%	unknown(0)	deleterious(0)	-	NULL
HOXA1	3198	genome.wustl.edu	37	7	27135011	27135011	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005522.4	-1	reviewed	p.A174V	1.000	69	0%	94	43.6%	0	-	possibly_damaging(0.507)	deleterious(0.05)	deleterious(0.515)	NULL
MYL7	58498	genome.wustl.edu	37	7	44179974	44179974	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021223.2	-1	validated	p.K82N	1.000	62	0%	58	13.8%	0	-	benign(0.096)	deleterious(0.02)	neutral(0.390)	superfamily_SSF47473
COBL	23242	genome.wustl.edu	37	7	51111282	51111282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015198.3	-1	validated	p.D402N	1.000	87	0%	73	41.1%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TYW1	55253	genome.wustl.edu	37	7	66474576	66474576	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018264.2	+1	validated	p.A94T	1.000	60	0%	156	12.8%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Flavodoxin_1,superfamily_Flavoproteins
CYP3A7	1551	genome.wustl.edu	37	7	99293381	99293382	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000292414	-1	known	p.C529fs	0.000:0.001	-	-	-	-	-	-	-	-	-	NULL
CUX1	1523	genome.wustl.edu	37	7	101839955	101839955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181552.2	+1	reviewed	p.R422C	1.000	68	0%	84	46.4%	0	-	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	NULL
CALD1	800	genome.wustl.edu	37	7	134632347	134632347	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033138.3	+1	reviewed	p.R541C	0.993	23	0%	14	28.6%	26	3.8%	unknown(0)	deleterious(0)	-	HMMPfam_Caldesmon
NUP205	23165	genome.wustl.edu	37	7	135322802	135322802	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015135.2	+1	validated	p.Q1754*	1.000	157	0%	193	14.5%	11	0%	-	-	-	NULL
CNTNAP2	26047	genome.wustl.edu	37	7	147926830	147926830	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014141.5	+1	reviewed	p.S1114G	0.972	295	0.3%	445	16%	0	-	benign(0.006)	tolerated(0.34)	neutral(0.023)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
LMBR1	64327	genome.wustl.edu	37	7	156556476	156556476	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022458.3	-1	reviewed	p.R146H	1.000	202	0%	220	33.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_LMBR1
CHD7	55636	genome.wustl.edu	37	8	61750309	61750309	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017780.2	+1	reviewed	p.E1423G	1.000	59	0%	141	39%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ARFGEF1	10565	genome.wustl.edu	37	8	68178397	68178397	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006421.3	-1	reviewed	p.P656H	1.000	100	0%	147	40.1%	0	-	benign(0.005)	tolerated(0.13)	neutral(0.253)	superfamily_ARM-type_fold
TCEB1	6921	genome.wustl.edu	37	8	74858948	74858948	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005648.2	-1	reviewed	p.S86G	1.000	37	0%	42	47.6%	143	41.9%	possibly_damaging(0.922)	deleterious(0.01)	deleterious(0.777)	HMMSmart_SM00512,superfamily_POZ domain
CSMD3	114788	genome.wustl.edu	37	8	113314056	113314056	+	Silent	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.S2802	0.783	102	0%	145	35.2%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CPSF1	29894	genome.wustl.edu	37	8	145624189	145624189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013291.2	-1	validated	p.A540T	0.858	34	0%	30	20%	21	4.7%	benign(0.007)	tolerated(0.34)	neutral(0.023)	NULL
LOC645225	645225	genome.wustl.edu	37	9	79655355	79655355	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_928264.1	+1	model	p.K8N	0.019	52	0%	99	18.2%	0	-	-	-	-	NULL
TLE1	7088	genome.wustl.edu	37	9	84205949	84205949	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005077.3	-1	provisional	p.R534C	1.000	218	0%	204	39.7%	21	23.8%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
ALDOB	229	genome.wustl.edu	37	9	104189860	104189860	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000035.3	-1	reviewed	p.W148*	1.000	95	0%	125	34.4%	1	0%	-	-	-	HMMPfam_Glycolytic,superfamily_Aldolase
MUSK	4593	genome.wustl.edu	37	9	113431247	113431247	+	Silent	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005592.3	+1	reviewed	p.T21	0.990	550	0%	613	20.2%	0	-	-	-	-	NULL
SPTAN1	6709	genome.wustl.edu	37	9	131374064	131374064	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130438.1	+1	validated	p.I1615	0.010	50	0%	42	21.4%	22	4.5%	-	-	-	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
FNBP1	23048	genome.wustl.edu	37	9	132662338	132662338	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015033.2	-1	reviewed	p.E531D	0.944	224	0%	263	39.9%	3	0%	benign(0.381)	tolerated(0.34)	neutral(0.144)	NULL
PRRC2B	84726	genome.wustl.edu	37	9	134363387	134363387	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000320547	+1	known	p.A50T	1.000	83	0%	64	43.8%	15	6.6%	-	-	-	NULL
TAF3	83860	genome.wustl.edu	37	10	8007652	8007653	+	Frame_Shift_Ins	INS	-	-	AG	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031923.2	+1	provisional	p.R730fs	0.997:0.687	-	-	-	-	-	-	-	-	-	NULL
ANKRD26	22852	genome.wustl.edu	37	10	27301963	27301963	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014915.2	-1	validated	p.L1601F	0.000	110	0%	150	12.7%	5	0%	benign(0.027)	tolerated(0.28)	neutral(0.033)	NULL
ANKRD26	22852	genome.wustl.edu	37	10	27382727	27382727	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014915.2	-1	validated	p.T82A	1.000	82	0%	99	11.1%	0	-	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ARID5B	84159	genome.wustl.edu	37	10	63845590	63845591	+	Frame_Shift_Ins	INS	-	-	ATCAAACA	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032199.2	+1	validated	p.H445fs	1.000:0.998	-	-	-	-	-	-	-	-	-	NULL
AIFM2	84883	genome.wustl.edu	37	10	71880940	71880940	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032797.4	-1	reviewed	p.A108T	1.000	62	0%	46	32.6%	14	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_Pyr_redox_2,superfamily_FAD/NAD(P)-binding domain
KAT6B	23522	genome.wustl.edu	37	10	76788703	76788703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012330.2	+1	validated	p.G1374E	0.003	357	0%	305	40.3%	1	0%	benign(0)	tolerated(0.44)	neutral(0.013)	NULL
FAM190B	54462	genome.wustl.edu	37	10	86273357	86273357	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000372088	+1	known	p.H826	0.000	145	0%	167	41.9%	20	50%	-	-	-	NULL
PTEN	5728	genome.wustl.edu	37	10	89720799	89720802	+	Frame_Shift_Del	DEL	TACT	TACT	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	TACT	TACT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.T319fs	1.000:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMPfam_PTEN_C2
GBF1	8729	genome.wustl.edu	37	10	104019816	104019816	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004193.1	+1	provisional	p.R36W	1.000	93	1.1%	242	20.7%	3	0%	probably_damaging(0.974)	deleterious(0.01)	deleterious(0.822)	NULL
NEURL	9148	genome.wustl.edu	37	10	105331311	105331311	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004210.4	+1	validated	p.S127	1.000	17	0%	28	35.7%	0	-	-	-	-	HMMPfam_Neuralized,HMMSmart_SM00588
ADD3	120	genome.wustl.edu	37	10	111883976	111883976	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016824.3	+1	reviewed	p.V449M	1.000	234	0%	434	39.6%	9	44.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZDHHC6	64429	genome.wustl.edu	37	10	114205046	114205046	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022494.1	-1	provisional	p.H50R	1.000	84	0%	82	36.6%	13	53.8%	benign(0.004)	tolerated(0.37)	neutral(0.019)	NULL
DMBT1	1755	genome.wustl.edu	37	10	124402857	124402857	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007329.2	+1	reviewed	p.V2395	0.003	58	0%	55	36.4%	26	23%	-	-	-	NULL
CYP2E1	1571	genome.wustl.edu	37	10	135350744	135350744	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000773.3	+1	reviewed	p.L382R	0.017	65	0%	43	32.6%	1	0%	possibly_damaging(0.898)	deleterious(0.05)	deleterious(0.700)	HMMPfam_p450,superfamily_Cytochrome_P450
RIC8A	60626	genome.wustl.edu	37	11	212920	212920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021932.4	+1	provisional	p.E438K	0.961	65	0%	36	16.7%	33	0%	possibly_damaging(0.659)	tolerated(0.18)	neutral(0.289)	HMMPfam_Ric8
TRPM5	29850	genome.wustl.edu	37	11	2427891	2427891	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014555.3	-1	validated	p.R1084I	1.000	30	0%	35	25.7%	0	-	unknown(0)	deleterious(0.02)	-	NULL
TRIM6-TRIM34	445372	genome.wustl.edu	37	11	5626691	5626691	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003819.2	+1	reviewed	p.I243N	0.002	185	0%	345	38.6%	0	-	possibly_damaging(0.819)	tolerated(0.54)	neutral(0.317)	NULL
RRP8	23378	genome.wustl.edu	37	11	6623126	6623126	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015324.2	-1	provisional	p.A140V	0.000	67	0%	83	44.6%	8	12.5%	benign(0)	tolerated(0.22)	neutral(0.042)	NULL
ST5	6764	genome.wustl.edu	37	11	8737214	8737214	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005418.3	-1	reviewed	p.N594S	0.036	41	0%	59	52.5%	9	0%	benign(0.018)	tolerated(0.85)	neutral(0.001)	NULL
INTS5	80789	genome.wustl.edu	37	11	62417429	62417429	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030628.1	-1	provisional	p.G41	0.001	96	0%	82	43.9%	1	100%	-	-	-	NULL
GSTP1	2950	genome.wustl.edu	37	11	67353638	67353638	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398606	+1	known	p.L134	1.000	42	0%	39	10.3%	1424	18.6%	-	-	-	HMMPfam_GST_C,superfamily_GST_C_like
ODZ4	26011	genome.wustl.edu	37	11	78413262	78413262	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098816.2	-1	validated	p.T1466A	1.000	147	0%	84	50%	1	0%	probably_damaging(0.998)	tolerated(0.23)	deleterious(0.516)	superfamily_SSF101898,superfamily_TolB_C
NCAM1	4684	genome.wustl.edu	37	11	113078005	113078005	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000401611	+1	known	p.R99	1.000	190	0%	161	17.4%	0	-	-	-	-	HMMPfam_I-set,superfamily_SSF48726
ENSG00000246407	0	genome.wustl.edu	37	12	8384474	8384474	+	RNA	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000499592	-1	known	NULL	0.001	20	0%	36	19.4%	2	100%	-	-	-	-
DDX47	51202	genome.wustl.edu	37	12	12975622	12975622	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016355.3	+1	reviewed	p.R197*	1.000	243	0.4%	332	16%	23	0%	-	-	-	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
PDE3A	5139	genome.wustl.edu	37	12	20783002	20783002	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000921.3	+1	validated	p.Y567fs	0.899	-	-	-	-	-	-	-	-	-	NULL
DBX2	440097	genome.wustl.edu	37	12	45417499	45417499	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004329.2	-1	validated	p.K226N	1.000	314	0%	514	10.7%	0	-	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like,PatternScan_HOMEOBOX_1
PLEKHA8P1	51054	genome.wustl.edu	37	12	45567091	45567091	+	Missense_Mutation	SNP	G	G	A	rs180755151	by1000genomes	TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015899.1	-1	provisional	p.A353V	0.942	231	0.4%	223	36.8%	7	28.5%	-	-	-	HMMPfam_GLTP,superfamily_Glycolipid_transfer_prot
BAZ2A	11176	genome.wustl.edu	37	12	56999093	56999093	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013449.3	-1	validated	p.R840*	1.000	89	0%	103	45.6%	1	0%	-	-	-	NULL
THAP2	83591	genome.wustl.edu	37	12	72070565	72070565	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031435.2	+1	provisional	p.L122F	0.999	109	0%	179	39.1%	2	50%	benign(0.201)	deleterious(0)	neutral(0.464)	NULL
KCNC2	3747	genome.wustl.edu	37	12	75444552	75444552	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139137.2	-1	reviewed	p.N411	0.996	218	0%	201	39.3%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SPIC	121599	genome.wustl.edu	37	12	101871356	101871356	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152323.1	+1	provisional	p.K8	0.972	181	0%	252	16.3%	0	-	-	-	-	NULL
ASCL1	429	genome.wustl.edu	37	12	103352373	103352373	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004316.3	+1	reviewed	p.P117	1.000	4	0.000	15	0.600	0	-	-	-	-	superfamily_HLH helix-loop-helix DNA-binding domain
USP30	84749	genome.wustl.edu	37	12	109523683	109523683	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032663.3	+1	validated	p.R501C	1.000	142	0%	81	18.5%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF54001
MTUS2	23281	genome.wustl.edu	37	13	29675049	29675049	+	Silent	SNP	A	A	T	rs140464903	by1000genomes	TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033602.2	+1	validated	p.S872	0.002	4	0.000	10	0.900	2	0%	-	-	-	NULL
DCLK1	9201	genome.wustl.edu	37	13	36396898	36396898	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004734.3	-1	validated	p.V508I	1.000	172	0%	218	39.4%	0	-	probably_damaging(0.993)	tolerated(0.08)	deleterious(0.750)	HMMSmart_S_TKc,PatternScan_PROTEIN_KINASE_ST,superfamily_Kinase_like,HMMPfam_Pkinase
ENSG00000247181	0	genome.wustl.edu	37	13	76100799	76100799	+	RNA	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000499458	+1	known	NULL	0.036	109	0%	266	38.3%	1	0%	-	-	-	-
TUBGCP3	10426	genome.wustl.edu	37	13	113153228	113153228	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000375669	-1	known	p.V824A	0.000	69	0%	79	21.5%	0	-	unknown(0)	-	-	NULL
AP1G2	8906	genome.wustl.edu	37	14	24033004	24033004	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003917.2	-1	reviewed	p.E385*	1.000	209	0%	190	42.6%	26	30.7%	-	-	-	HMMPfam_Adaptin_N,superfamily_ARM-type_fold
LRRC16B	90668	genome.wustl.edu	37	14	24534241	24534241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138360.3	+1	validated	p.R1052H	0.996	36	0%	62	33.9%	0	-	unknown(0)	deleterious(0.03)	-	NULL
PTGDR	5729	genome.wustl.edu	37	14	52734971	52734971	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000953.2	+1	reviewed	p.R147C	0.919	105	0%	73	15.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
SYNDIG1L	646658	genome.wustl.edu	37	14	74874573	74874573	+	Silent	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105579.1	-1	validated	p.A179	0.810	61	0%	51	41.2%	0	-	-	-	-	HMMPfam_CD225
EML1	2009	genome.wustl.edu	37	14	100375726	100375726	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008707.1	+1	reviewed	p.D402	1.000	123	0%	160	19.4%	0	-	-	-	-	HMMSmart_WD40,superfamily_WD40_like
IGHV1-58	28464	genome.wustl.edu	37	14	107078377	107078377	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390628	-1	known	p.A116V	0.990	379	0%	426	21.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IGv,HMMPfam_V-set,superfamily_SSF48726
FAN1	22909	genome.wustl.edu	37	15	31197599	31197599	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014967.4	+1	reviewed	p.T245A	0.000	81	0%	79	15.2%	1	0%	benign(0.01)	tolerated(0.22)	neutral(0.043)	NULL
OTUD7A	161725	genome.wustl.edu	37	15	31795941	31795941	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130901.1	-1	provisional	p.P318L	1.000	160	0%	124	39.5%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_OTU
MGA	23269	genome.wustl.edu	37	15	42053974	42053974	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080541.2	+1	validated	p.D2528G	1.000	30	0%	65	16.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00353,superfamily_HLH helix-loop-helix DNA-binding domain
SLC28A2	9153	genome.wustl.edu	37	15	45560513	45560513	+	Silent	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004212.3	+1	validated	p.A435	0.994	165	0%	203	40.9%	2	0%	-	-	-	HMMPfam_Nucleos_tra2_C
TRPM7	54822	genome.wustl.edu	37	15	50931722	50931722	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017672.4	-1	reviewed	p.A187T	1.000	77	0%	239	22.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LOC100289289	100289289	genome.wustl.edu	37	15	62547534	62547534	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343368.1	-1	model	p.R630W	0.004	77	0%	50	34%	0	-	-	-	-	NULL
PIF1	80119	genome.wustl.edu	37	15	65113621	65113621	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025049.2	-1	validated	p.D306N	1.000	98	0%	113	41.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_P-loop containing nucleoside triphosphate hydrolases
IGF1R	3480	genome.wustl.edu	37	15	99454554	99454554	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000875.3	+1	reviewed	p.D491	0.774	125	0%	102	32.4%	2	0%	-	-	-	HMMSmart_FN3,superfamily_FN_III-like
PGPEP1L	145814	genome.wustl.edu	37	15	99511804	99511805	+	Frame_Shift_Ins	INS	-	-	C	rs5814919	byCluster;by1000genomes	TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102612.2	-1	validated	p.V165fs	0.897:0.907	-	-	-	-	-	-	-	-	-	superfamily_Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
PGPEP1L	145814	genome.wustl.edu	37	15	99512805	99512805	+	Silent	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102612.2	-1	validated	p.R74	0.002	135	0%	178	41%	0	-	-	-	-	superfamily_Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
TEKT5	146279	genome.wustl.edu	37	16	10769978	10769979	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144674.1	-1	provisional	p.N308fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Tektin
GTF3C1	2975	genome.wustl.edu	37	16	27481651	27481651	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001520.3	-1	validated	p.R1531Q	0.112	328	0.3%	308	36.7%	8	50%	possibly_damaging(0.612)	tolerated(0.34)	neutral(0.235)	NULL
XPO6	23214	genome.wustl.edu	37	16	28188616	28188616	+	Silent	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015171.2	-1	provisional	p.A44	0.998	78	0%	158	36.7%	2	0%	-	-	-	HMMPfam_IBN_N,superfamily_ARM repeat
TUFM	7284	genome.wustl.edu	37	16	28854319	28854319	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003321.4	-1	reviewed	p.E449K	1.000	232	0%	229	18.3%	239	16.7%	benign(0.001)	tolerated(0.07)	neutral(0.319)	superfamily_EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
ITGAX	3687	genome.wustl.edu	37	16	31383721	31383721	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000887.3	+1	reviewed	p.T728I	0.999	116	0%	112	11.6%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	HMMPfam_Integrin_alpha2,superfamily_SSF69179
NIP7	51388	genome.wustl.edu	37	16	69373951	69373951	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016101.3	+1	validated	p.G33	1.000	70	0%	74	20.3%	12	33.3%	-	-	-	superfamily_Pre-PUA domain
ZFHX3	463	genome.wustl.edu	37	16	72831543	72831544	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.L1679fs	0.286:0.073	-	-	-	-	-	-	-	-	-	NULL
MLKL	197259	genome.wustl.edu	37	16	74726248	74726248	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152649.2	-1	validated	p.L176S	0.001	91	0%	144	16.7%	1	0%	possibly_damaging(0.816)	deleterious(0.01)	deleterious(0.714)	superfamily_Protein kinase-like (PK-like)
GAN	8139	genome.wustl.edu	37	16	81390594	81390596	+	In_Frame_Del	DEL	GGA	GGA	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	GGA	GGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022041.3	+1	reviewed	p.G280in_frame_del	1.000:1.000:0.592	-	-	-	-	-	-	-	-	-	HMMSmart_Kelch,superfamily_Gal_oxid_central
TSR1	55720	genome.wustl.edu	37	17	2236962	2236962	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018128.4	-1	validated	p.L344I	0.906	62	0%	118	15.3%	7	0%	benign(0.045)	tolerated(0.09)	neutral(0.299)	NULL
PSMB6	5694	genome.wustl.edu	37	17	4700732	4700732	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002798.1	+1	reviewed	e3-1	1.000	267	0%	370	40.5%	0	-	-	-	-	-
GP1BA	2811	genome.wustl.edu	37	17	4837450	4837450	+	Silent	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000173.5	+1	reviewed	p.N504	0.000	233	0.4%	421	40.9%	0	-	-	-	-	NULL
FBXO39	162517	genome.wustl.edu	37	17	6683671	6683671	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153230.2	+1	validated	p.K162fs	1.000	-	-	-	-	-	-	-	-	-	superfamily_SSF52047
ACADVL	37	genome.wustl.edu	37	17	7124096	7124096	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000018.2	+1	reviewed	p.E97*	1.000	73	0%	54	31.5%	34	17.6%	-	-	-	superfamily_Acyl-CoA dehydrogenase NM domain-like
TOP3A	7156	genome.wustl.edu	37	17	18210229	18210229	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412083	-1	known	p.P102S	0.999	36	0%	91	30.8%	2	0%	-	-	-	superfamily_Prokaryotic type I DNA topoisomerase,HMMSmart_SM00493,HMMPfam_Toprim
PEX12	5193	genome.wustl.edu	37	17	33904176	33904176	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000286.2	-1	reviewed	p.Q187	0.999	176	0%	218	31.7%	3	66.6%	-	-	-	HMMPfam_Pex2_Pex12
ACACA	31	genome.wustl.edu	37	17	35605050	35605050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198834.1	-1	reviewed	p.V732M	1.000	87	0%	126	31%	0	-	possibly_damaging(0.609)	deleterious(0)	deleterious(0.655)	NULL
CDK12	51755	genome.wustl.edu	37	17	37646925	37646925	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016507.2	+1	validated	p.P683T	1.000	89	0%	170	27.6%	0	-	unknown(0)	tolerated(0.06)	-	NULL
ERBB2	2064	genome.wustl.edu	37	17	37879613	37879613	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004448.2	+1	reviewed	p.L663P	0.998	54	0%	71	39.4%	16	25%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
RAD51C	5889	genome.wustl.edu	37	17	56811555	56811555	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058216.1	+1	reviewed	p.R368Q	1.000	60	0%	116	32.8%	10	20%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
SCN4A	6329	genome.wustl.edu	37	17	62018349	62018349	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000334.4	-1	reviewed	p.A1765T	0.693	72	0%	47	46.8%	0	-	benign(0.098)	tolerated(0.38)	neutral(0.025)	NULL
KIF19	124602	genome.wustl.edu	37	17	72324649	72324650	+	Frame_Shift_Ins	INS	-	-	C	rs11412158	byCluster;by1000genomes	TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000440684	+1	known	p.R320fs	0.000:0.000	-	-	-	-	-	-	-	-	-	NULL
C17orf56	146705	genome.wustl.edu	37	17	79202839	79202839	+	Silent	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144679.1	-1	predicted	p.A489	0.000	12	0%	24	33.3%	16	37.5%	-	-	-	NULL
ALYREF	10189	genome.wustl.edu	37	17	79848604	79848604	+	Silent	SNP	C	C	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005782.3	-1	reviewed	p.V110	0.998	27	0%	45	17.8%	61	9.8%	-	-	-	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
SLC14A1	6563	genome.wustl.edu	37	18	43316498	43316498	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128588.3	+1	reviewed	p.A239V	0.990	217	0%	216	41.7%	2	0%	benign(0.009)	tolerated(0.41)	neutral(0.015)	HMMPfam_UT
C18orf26	284254	genome.wustl.edu	37	18	52258443	52258443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173629.1	+1	predicted	p.A3V	0.986	215	0%	261	15.7%	0	-	possibly_damaging(0.568)	-	-	NULL
CDH20	28316	genome.wustl.edu	37	18	59166445	59166445	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031891.2	+1	reviewed	p.D91E	0.975	29	0%	39	41%	0	-	benign(0.001)	tolerated(0.29)	neutral(0.029)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
ELAVL1	1994	genome.wustl.edu	37	19	8045966	8045966	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001419.2	-1	reviewed	e2+1	1.000	56	0%	55	36.4%	0	-	-	-	-	-
OR7D4	125958	genome.wustl.edu	37	19	9325166	9325166	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005191.1	-1	provisional	p.A116	0.001	311	0%	295	38.6%	0	-	-	-	-	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_Family A G protein-coupled receptor-like
CARM1	10498	genome.wustl.edu	37	19	11022924	11022924	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199141.1	+1	validated	p.R208Q	0.975	105	0%	86	41.9%	15	20%	possibly_damaging(0.825)	tolerated(0.06)	deleterious(0.635)	HMMPfam_PrmA,superfamily_SSF53335
ZNF700	90592	genome.wustl.edu	37	19	12060496	12060496	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144566.1	+1	provisional	p.Y553N	0.034	276	0%	271	33.9%	1	0%	probably_damaging(0.98)	tolerated(0.51)	neutral(0.433)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
SLC1A6	6511	genome.wustl.edu	37	19	15079134	15079134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005071.1	-1	provisional	p.A177T	1.000	51	0%	51	21.6%	0	-	probably_damaging(1)	tolerated(0.58)	deleterious(0.505)	HMMPfam_SDF
ZNF91	7644	genome.wustl.edu	37	19	23544784	23544784	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003430.2	-1	validated	p.R333C	0.000	346	0.3%	540	36.3%	1	100%	probably_damaging(0.999)	tolerated(0.22)	deleterious(0.532)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
RAB4B	53916	genome.wustl.edu	37	19	41289892	41289892	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016154.3	+1	validated	p.I114	0.999	32	0%	50	52%	23	13%	-	-	-	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
CYP2B7P1	1556	genome.wustl.edu	37	19	41448086	41448086	+	RNA	SNP	C	C	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_001278.1	+1	provisional	NULL	0.657	327	0%	413	41.2%	0	-	-	-	-	-
HNRNPUL1	11100	genome.wustl.edu	37	19	41808666	41808666	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007040.3	+1	reviewed	p.N595S	0.985	109	0%	124	17.7%	78	19.2%	benign(0.37)	tolerated(0.06)	neutral(0.440)	NULL
ENSG00000229113	0	genome.wustl.edu	37	19	42027688	42027688	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439847	-1	known	p.R199M	0.961	278	0%	374	39.6%	0	-	-	-	-	NULL
PRR19	284338	genome.wustl.edu	37	19	42813906	42813906	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199285.2	+1	validated	p.T57I	0.002	65	0%	65	13.8%	0	-	possibly_damaging(0.765)	deleterious(0.03)	deleterious(0.648)	NULL
LHB	3972	genome.wustl.edu	37	19	49519392	49519392	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000894.2	-1	reviewed	p.C120Y	0.998	29	0%	53	47.2%	1	100%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_GHB,HMMPfam_Cys_knot,PatternScan_GLYCO_HORMONE_BETA_2,superfamily_SSF57501
USP29	57663	genome.wustl.edu	37	19	57641940	57641940	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020903.2	+1	validated	p.V633I	0.000	140	0%	154	40.9%	0	-	possibly_damaging(0.616)	tolerated(0.76)	neutral(0.215)	HMMPfam_UCH,superfamily_SSF54001
CTNNBL1	56259	genome.wustl.edu	37	20	36374973	36374973	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030877.3	+1	reviewed	p.Q144*	1.000	280	0%	240	15%	12	0%	-	-	-	HMMPfam_DUF1716,superfamily_ARM repeat
RALGAPB	57148	genome.wustl.edu	37	20	37191217	37191217	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020336.2	+1	validated	p.F1192I	1.000	308	0%	406	41.1%	5	0%	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	superfamily_Rap/Ran-GAP (Pfam 02145)
COL6A2	1292	genome.wustl.edu	37	21	47549156	47549156	+	Silent	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058174.2	+1	reviewed	p.T836	1.000	7	0.000	28	0.286	33	0%	-	-	-	NULL
UPB1	51733	genome.wustl.edu	37	22	24898107	24898107	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016327.2	+1	reviewed	p.H97R	1.000	368	0%	594	38%	0	-	benign(0.053)	tolerated(0.35)	neutral(0.024)	HMMPfam_CN_hydrolase,superfamily_Carbon-nitrogen hydrolase
TMPRSS6	164656	genome.wustl.edu	37	22	37480305	37480305	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000442782	-1	known	p.P418H	0.006	34	0%	34	23.5%	0	-	unknown(0)	deleterious(0)	-	superfamily_Spermadhesin CUB domain
NCAPH2	29781	genome.wustl.edu	37	22	50957081	50957081	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152299.3	+1	reviewed	p.T217S	0.003	4	0.000	8	0.625	14	35.7%	benign(0)	tolerated(0.73)	neutral(0.002)	HMMPfam_DUF1032
YY2	404281	genome.wustl.edu	37	X	21875591	21875591	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206923.3	+1	reviewed	p.T330I	0.998	384	0%	371	36.9%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ATP6AP2	10159	genome.wustl.edu	37	X	40460121	40460121	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005765.2	+1	reviewed	p.E282D	0.969	69	0%	111	21.6%	107	42%	possibly_damaging(0.662)	tolerated(0.14)	deleterious(0.484)	HMMPfam_Renin_r
SHROOM4	57477	genome.wustl.edu	37	X	50378303	50378303	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020717.3	-1	reviewed	p.R257H	0.001	27	0%	28	21.4%	0	-	benign(0.001)	tolerated(0.35)	neutral(0.021)	NULL
HUWE1	10075	genome.wustl.edu	37	X	53596773	53596773	+	Silent	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427052	-1	known	p.S1143G	0.994	226	0%	177	38.4%	1	0%	-	-	-	superfamily_ARM repeat
WNK3	65267	genome.wustl.edu	37	X	54264789	54264789	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020922.4	-1	reviewed	p.R1334W	1.000	104	0%	202	19.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ITGB1BP2	26548	genome.wustl.edu	37	X	70525033	70525033	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012278.1	+1	provisional	p.M345I	0.899	98	0%	99	21.2%	0	-	unknown(0)	deleterious(0)	-	NULL
PLP1	5354	genome.wustl.edu	37	X	103041425	103041425	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000533.3	+1	reviewed	p.T75S	1.000	352	0%	212	36.3%	0	-	benign(0.139)	deleterious(0)	neutral(0.457)	HMMPfam_Myelin_PLP
ALG13	79868	genome.wustl.edu	37	X	110961461	110961461	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000394780	+1	known	p.S403	0.941	18	0%	34	47.1%	0	-	-	-	-	NULL
KLHL13	90293	genome.wustl.edu	37	X	117079442	117079442	+	Silent	SNP	A	A	G	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033495.3	-1	reviewed	p.P65	0.998	182	0%	235	13.2%	0	-	-	-	-	NULL
THOC2	57187	genome.wustl.edu	37	X	122755401	122755401	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081550.1	-1	validated	p.K1275E	1.000	250	0%	306	44.8%	5	0%	probably_damaging(0.982)	tolerated(1)	neutral(0.426)	NULL
ARHGAP36	158763	genome.wustl.edu	37	X	130215714	130215714	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144967.3	+1	validated	p.L25F	0.706	208	0%	167	46.1%	0	-	possibly_damaging(0.896)	deleterious(0)	deleterious(0.798)	NULL
ARHGEF6	9459	genome.wustl.edu	37	X	135790898	135790898	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004840.2	-1	reviewed	p.G287*	1.000	128	0%	164	34.1%	0	-	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
MAGEA11	4110	genome.wustl.edu	37	X	148794847	148794847	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005366.4	+1	reviewed	p.L10	0.001	88	0%	71	9.9%	0	-	-	-	-	NULL
LOC100129236	100129236	genome.wustl.edu	37	X	150684583	150684583	+	Silent	SNP	C	C	T	novel		TCGA-AP-A05N-01A-11W-A027-09	TCGA-AP-A05N-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001716550.1	+1	model	p.D131	0.000	13	0%	13	46.2%	0	-	-	-	-	NULL
