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
RER1	11079	genome.wustl.edu	37	1	2334500	2334500	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007033.4	+1	reviewed	p.P176	0.007	72	0%	98	35.7%	172	40.1%	-	-	-	HMMPfam_Rer1
MTOR	2475	genome.wustl.edu	37	1	11210216	11210216	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004958.3	-1	reviewed	p.A1513T	1.000	98	0%	136	63.2%	0	-	possibly_damaging(0.677)	deleterious(0)	deleterious(0.685)	HMMPfam_FAT,superfamily_ARM-type_fold,superfamily_SSF48452
CLCN6	1185	genome.wustl.edu	37	1	11894088	11894088	+	Splice_Site	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001286.2	+1	reviewed	e15+1	1.000	198	0%	281	18.9%	0	-	-	-	-	-
ZBTB17	7709	genome.wustl.edu	37	1	16268936	16268936	+	Missense_Mutation	SNP	C	C	T	rs150936019	by1000genomes	TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000375733	-1	known	p.G680D	0.002	35	0%	32	37.5%	1	0%	probably_damaging(1)	tolerated(0.42)	deleterious(0.514)	NULL
NECAP2	55707	genome.wustl.edu	37	1	16782332	16782332	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018090.4	+1	reviewed	p.W229*	1.000	46	0%	87	12.6%	9	0%	-	-	-	NULL
ARHGEF10L	55160	genome.wustl.edu	37	1	17982446	17982446	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018125.3	+1	validated	p.V852I	1.000	24	0%	35	14.3%	8	12.5%	possibly_damaging(0.798)	tolerated(0.4)	neutral(0.317)	NULL
C1orf38	9473	genome.wustl.edu	37	1	28211827	28211827	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105556.1	+1	validated	p.Q581*	0.000	108	0%	153	63.4%	9	44.4%	-	-	-	NULL
TMEM39B	55116	genome.wustl.edu	37	1	32566131	32566132	+	Frame_Shift_Ins	INS	-	-	TCCCC	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018056.2	+1	validated	p.D405fs	0.981:0.998	-	-	-	-	-	-	-	-	-	HMMPfam_Tmp39
RIMS3	9783	genome.wustl.edu	37	1	41101655	41101655	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014747.2	-1	validated	p.R98W	1.000	16	0%	29	31%	0	-	probably_damaging(1)	tolerated(0.19)	deleterious(0.549)	NULL
SZT2	23334	genome.wustl.edu	37	1	43895413	43895413	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015284.2	+1	predicted	p.S503	0.427	107	0%	120	70.8%	0	-	-	-	-	NULL
NRAS	4893	genome.wustl.edu	37	1	115258747	115258747	+	Missense_Mutation	SNP	C	C	T	rs121913237	byCluster	TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002524.3	-1	reviewed	p.G12D	1.000	322	0%	343	66.5%	1	0%	possibly_damaging(0.844)	deleterious(0)	deleterious(0.768)	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
NOTCH2	4853	genome.wustl.edu	37	1	120512300	120512300	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024408.2	-1	reviewed	p.T314	1.000	134	0%	154	33.1%	0	-	-	-	-	HMMSmart_EGF_CA,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_SSF57196
NBPF9	400818	genome.wustl.edu	37	1	144824710	144824710	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037675.2	+1	predicted	p.L429	0.002	9	0.000	18	0.278	0	-	possibly_damaging(0.892)	tolerated(0.25)	neutral(0.388)	NULL
ATP8B2	57198	genome.wustl.edu	37	1	154318946	154318946	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020452.3	+1	reviewed	p.S1039	0.990	60	0%	78	33.3%	3	0%	-	-	-	superfamily_SSF81665
VANGL2	57216	genome.wustl.edu	37	1	160385694	160385694	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020335.1	+1	validated	p.H23Y	1.000	23	0%	26	26.9%	1	100%	unknown(0)	tolerated(0.1)	-	HMMPfam_Strabismus
SEC16B	89866	genome.wustl.edu	37	1	177930738	177930738	+	Silent	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033127.2	-1	validated	p.S258	0.959	52	0%	58	43.1%	1	100%	-	-	-	NULL
HMCN1	83872	genome.wustl.edu	37	1	186135987	186135987	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.D5163N	1.000	311	0%	375	32.5%	0	-	probably_damaging(1)	tolerated(0.27)	deleterious(0.533)	HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
KIF21B	23046	genome.wustl.edu	37	1	200978071	200978071	+	Silent	SNP	G	G	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017596.2	-1	provisional	p.A91	0.011	28	0%	63	22.2%	1	0%	-	-	-	HMMPfam_Kinesin,HMMSmart_KISc,superfamily_SSF52540
PGBD5	79605	genome.wustl.edu	37	1	230498042	230498042	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024554.3	-1	reviewed	p.G133E	0.012	59	0%	68	33.8%	0	-	benign(0)	tolerated(0.14)	neutral(0.249)	NULL
ZNF670	93474	genome.wustl.edu	37	1	247200896	247200896	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033213.2	-1	validated	p.C342Y	1.000	181	0%	255	32.9%	2	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
DHX57	90957	genome.wustl.edu	37	2	39081294	39081294	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198963.1	-1	provisional	p.C644	1.000	228	0%	291	38.5%	2	100%	-	-	-	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
PREPL	9581	genome.wustl.edu	37	2	44556234	44556234	+	Silent	SNP	T	T	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006036.4	-1	reviewed	p.P457	0.709	170	0%	161	21.7%	5	60%	-	-	-	superfamily_alpha/beta-Hydrolases
CCDC85A	114800	genome.wustl.edu	37	2	56603037	56603037	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080433.1	+1	provisional	p.S513	1.000	146	0%	187	34.8%	0	-	-	-	-	NULL
DCTN1	1639	genome.wustl.edu	37	2	74592654	74592654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004082.3	-1	reviewed	p.R1006Q	1.000	100	0%	157	35.7%	33	42.4%	benign(0.077)	tolerated(0.24)	neutral(0.043)	NULL
RETSAT	54884	genome.wustl.edu	37	2	85573154	85573154	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000449375	-1	known	p.Q143*	0.985	49	0%	59	30.5%	4	25%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_FAD/NAD(P)-binding domain
GGCX	2677	genome.wustl.edu	37	2	85785709	85785709	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000821.4	-1	reviewed	p.L131	1.000	60	0%	108	28.7%	0	-	-	-	-	HMMPfam_VKG_Carbox,HMMSmart_HTTM
ADRA2B	151	genome.wustl.edu	37	2	96780734	96780734	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409345	-1	known	p.F385	1.000	76	0%	111	36.9%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
R3HDM1	23518	genome.wustl.edu	37	2	136409470	136409470	+	Silent	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429703	+1	known	p.T321A	0.199	123	0%	163	34.4%	0	-	-	-	-	NULL
ARL6IP6	151188	genome.wustl.edu	37	2	153616487	153616487	+	RNA	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_024526.1	+1	validated	NULL	0.009	38	0%	38	13.2%	4	25%	-	-	-	-
GCA	25801	genome.wustl.edu	37	2	163215595	163215595	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012198.3	+1	validated	p.R166C	1.000	281	0%	334	31.4%	16	18.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_EF-hand
TTN	7273	genome.wustl.edu	37	2	179590278	179590278	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.V5641I	1.000	366	0%	344	29.9%	0	-	unknown(0)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
DNAH7	56171	genome.wustl.edu	37	2	196822051	196822051	+	Silent	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.P1004	0.515	130	0%	189	27.5%	0	-	-	-	-	HMMPfam_DHC_N2
PARD3B	117583	genome.wustl.edu	37	2	206166352	206166352	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152526.4	+1	validated	p.E791K	1.000	191	0%	197	35.5%	0	-	probably_damaging(0.999)	tolerated(0.5)	deleterious(0.500)	NULL
MTMR14	64419	genome.wustl.edu	37	3	9719673	9719673	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077525.2	+1	reviewed	p.Y276	1.000	70	0%	99	36.4%	5	20%	-	-	-	superfamily_(Phosphotyrosine protein) phosphatases II
BRPF1	7862	genome.wustl.edu	37	3	9776420	9776420	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003694.1	+1	reviewed	p.Y199C	1.000	32	0%	46	21.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_EPL1
SATB1	6304	genome.wustl.edu	37	3	18391132	18391133	+	In_Frame_Ins	INS	-	-	CTG	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131010.1	-1	validated	p.607in_frame_insQ	0.003:0.002	-	-	-	-	-	-	-	-	-	NULL
MLH1	4292	genome.wustl.edu	37	3	37050365	37050365	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000249.3	+1	reviewed	p.E172K	1.000	450	0%	387	30%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_ATP_bd_ATPase
CX3CR1	1524	genome.wustl.edu	37	3	39307902	39307902	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001337.3	-1	reviewed	p.F33	0.673	115	0%	156	37.8%	0	-	-	-	-	superfamily_Family A G protein-coupled receptor-like
BSN	8927	genome.wustl.edu	37	3	49691938	49691938	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.G1650E	1.000	35	0%	50	34%	0	-	probably_damaging(1)	-	-	NULL
NAT6	24142	genome.wustl.edu	37	3	50334162	50334162	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012191.2	-1	provisional	p.P267S	0.999	43	0%	67	32.8%	10	20%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
CISH	1154	genome.wustl.edu	37	3	50645878	50645879	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	CT	CT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013324.5	-1	reviewed	p.S73fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
IQCF3	401067	genome.wustl.edu	37	3	51863728	51863728	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085479.1	+1	provisional	p.K22N	0.996	378	0.3%	504	21.2%	0	-	probably_damaging(0.958)	tolerated(0.07)	deleterious(0.721)	superfamily_P-loop containing nucleoside triphosphate hydrolases
CACNA1D	776	genome.wustl.edu	37	3	53804453	53804453	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000720.2	+1	validated	p.N1326	1.000	178	0%	231	35.5%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_SSF81324
PDHB	5162	genome.wustl.edu	37	3	58414129	58414129	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000474765	-1	known	p.R317	0.000	63	0%	72	33.3%	7	71.4%	-	-	-	NULL
KCTD6	200845	genome.wustl.edu	37	3	58486807	58486807	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128214.1	+1	validated	p.G54	1.000	133	0%	176	31.2%	12	66.6%	-	-	-	HMMSmart_SM00225,HMMPfam_K_tetra,superfamily_POZ domain
CCDC80	151887	genome.wustl.edu	37	3	112357720	112357720	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199511.1	-1	validated	p.P345S	0.901	113	0%	170	38.2%	0	-	possibly_damaging(0.771)	tolerated(0.1)	deleterious(0.573)	NULL
PARP9	83666	genome.wustl.edu	37	3	122274874	122274874	+	Silent	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031458.2	-1	validated	p.E83	0.995	81	0%	116	26.7%	6	83.3%	unknown(0)	-	-	superfamily_Macro domain-like
KALRN	8997	genome.wustl.edu	37	3	124380745	124380745	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024660.3	+1	reviewed	p.M2104I	1.000	186	0%	252	25%	1	0%	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	superfamily_DBL homology domain (DH-domain)
COL6A6	131873	genome.wustl.edu	37	3	130368095	130368095	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102608.1	+1	provisional	p.H1808Y	0.000	66	0%	91	29.7%	0	-	possibly_damaging(0.465)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
PIK3CA	5290	genome.wustl.edu	37	3	178917478	178917478	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.G118D	1.000	245	0%	238	36.6%	0	-	probably_damaging(0.976)	deleterious(0.04)	deleterious(0.767)	superfamily_SSF54236
PIK3CA	5290	genome.wustl.edu	37	3	178938931	178938931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.D725N	1.000	143	0%	172	31.4%	1	0%	probably_damaging(1)	tolerated(0.3)	deleterious(0.528)	superfamily_Kinase_like
DGKG	1608	genome.wustl.edu	37	3	185990101	185990101	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001346.2	-1	reviewed	p.V314	0.994	212	0%	267	29.2%	0	-	-	-	-	HMMPfam_C1_1,HMMSmart_SM00109,PatternScan_ZF_DAG_PE_1,superfamily_Cysteine-rich domain
LMLN	89782	genome.wustl.edu	37	3	197751626	197751626	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136049.2	+1	reviewed	p.L578	1.000	233	0%	264	39.4%	1	100%	-	-	-	"HMMPfam_Peptidase_M8,superfamily_Metalloproteases (""zincins"") catalytic domain"
MAEA	10296	genome.wustl.edu	37	4	1305835	1305835	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017405.1	+1	reviewed	p.H46	1.000	24	0%	33	30.3%	10	60%	-	-	-	NULL
FAM193A	8603	genome.wustl.edu	37	4	2659543	2659543	+	Missense_Mutation	SNP	C	C	T	rs34435530	byCluster;byFrequency;by1000genomes	TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003704.3	+1	validated	p.T151I	1.000	255	0%	259	27.4%	8	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
HTT	3064	genome.wustl.edu	37	4	3213828	3213828	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002111.6	+1	reviewed	p.A2196V	0.000	50	0%	52	32.7%	0	-	benign(0)	tolerated(0.32)	neutral(0.024)	NULL
KIAA1239	57495	genome.wustl.edu	37	4	37448297	37448297	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144990.1	+1	validated	p.A1563T	1.000	238	0%	299	29.8%	0	-	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	superfamily_WD40_like
KLHL5	51088	genome.wustl.edu	37	4	39064614	39064614	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000381933	+1	known	p.A165V	1.000	72	0%	94	33%	1	0%	-	-	-	NULL
EPHA5	2044	genome.wustl.edu	37	4	66509094	66509094	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004439.5	-1	reviewed	p.F78S	0.998	160	0%	195	28.7%	0	-	benign(0.062)	tolerated(0.49)	neutral(0.015)	HMMPfam_Ephrin_lbd,HMMSmart_SM00615,superfamily_Galactose-binding domain-like
AFF1	4299	genome.wustl.edu	37	4	88052954	88052954	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005935.2	+1	validated	p.M1030I	1.000	427	0%	466	30.7%	3	33.3%	unknown(0)	deleterious(0.01)	-	HMMPfam_AF-4
SLC9B2	133308	genome.wustl.edu	37	4	103988741	103988741	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508136	-1	known	p.F105	0.001	268	0%	291	30.6%	0	-	-	-	-	superfamily_NAD(P)-binding Rossmann-fold domains
FAM173B	134145	genome.wustl.edu	37	5	10235349	10235349	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199133.2	-1	validated	p.V157I	0.878	180	0%	247	32.8%	3	66.6%	possibly_damaging(0.739)	tolerated(0.45)	neutral(0.283)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
SLC45A2	51151	genome.wustl.edu	37	5	33984310	33984310	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016180.3	-1	reviewed	p.V127I	0.000	48	0%	70	51.4%	0	-	unknown(0)	tolerated(0.69)	-	superfamily_MFS general substrate transporter
DEPDC1B	55789	genome.wustl.edu	37	5	59982947	59982947	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018369.2	-1	validated	p.W52*	1.000	127	0%	150	42%	0	-	-	-	-	"HMMPfam_DEP,HMMSmart_SM00049,superfamily_""Winged helix"" DNA-binding domain"
KIF2A	3796	genome.wustl.edu	37	5	61659573	61659573	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098511.1	+1	validated	p.V438	0.950	178	0%	265	32.1%	0	-	-	-	-	HMMPfam_Kinesin,HMMSmart_KISc,superfamily_SSF52540
GPR98	84059	genome.wustl.edu	37	5	90445988	90445988	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032119.3	+1	reviewed	p.G6192R	1.000	158	0%	217	34.1%	1	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
APC	324	genome.wustl.edu	37	5	112178885	112178885	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.H2532Y	1.000	82	0%	73	38.4%	3	66.6%	probably_damaging(0.98)	deleterious(0.01)	deleterious(0.830)	HMMPfam_APC_basic
PCDHA4	56144	genome.wustl.edu	37	5	140188478	140188478	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018907.2	+1	reviewed	p.R569Q	0.000	52	0%	62	46.8%	1	0%	benign(0.006)	tolerated(0.42)	neutral(0.014)	superfamily_Cadherin-like
PCDHB3	56132	genome.wustl.edu	37	5	140481921	140481921	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018937.2	+1	reviewed	p.Y563C	1.000	16	0%	21	38.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Cadherin-like
PCDHB6	56130	genome.wustl.edu	37	5	140530392	140530392	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018939.2	+1	reviewed	p.S185N	0.000	53	0%	95	32.6%	2	50%	benign(0.148)	tolerated(0.29)	neutral(0.042)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHGA9	56107	genome.wustl.edu	37	5	140783352	140783352	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018921.2	+1	reviewed	p.A278V	0.000	51	0%	63	33.3%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
POU4F3	5459	genome.wustl.edu	37	5	145719154	145719154	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002700.2	+1	reviewed	p.A55V	1.000	50	0%	67	32.8%	0	-	benign(0.001)	deleterious(0.01)	neutral(0.406)	NULL
MRPL22	29093	genome.wustl.edu	37	5	154346344	154346344	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014180.3	+1	reviewed	p.V170M	1.000	199	0%	250	30.4%	135	41.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ribosomal_L22,superfamily_Ribosomal protein L22
HK3	3101	genome.wustl.edu	37	5	176318413	176318413	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002115.2	-1	reviewed	p.V79M	0.999	28	0%	44	29.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Hexokinase_1,superfamily_SSF53067
JARID2	3720	genome.wustl.edu	37	6	15512527	15512527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004973.2	+1	reviewed	p.S1014F	1.000	77	0%	121	37.2%	2	0%	probably_damaging(0.964)	deleterious(0)	deleterious(0.851)	HMMSmart_SM00558,HMMPfam_JmjC
MDFI	4188	genome.wustl.edu	37	6	41613889	41613889	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005586.3	+1	reviewed	p.G34	0.993	53	0%	84	40.5%	4	50%	-	-	-	NULL
AARS2	57505	genome.wustl.edu	37	6	44272437	44272437	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020745.2	-1	validated	p.A566V	0.995	25	0%	34	20.6%	4	25%	probably_damaging(0.977)	deleterious(0)	deleterious(0.863)	HMMPfam_tRNA-synt_2c
DST	667	genome.wustl.edu	37	6	56347593	56347593	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.R4474L	0.983	71	0%	87	12.6%	2	0%	possibly_damaging(0.898)	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
MYO6	4646	genome.wustl.edu	37	6	76527370	76527370	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004999.3	+1	reviewed	p.Q36K	1.000	126	0%	167	17.4%	1	100%	benign(0.004)	tolerated(0.66)	neutral(0.003)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DSE	29940	genome.wustl.edu	37	6	116757177	116757177	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080976.1	+1	reviewed	p.D516N	1.000	72	0%	74	18.9%	2	0%	benign(0.235)	tolerated(0.48)	neutral(0.034)	NULL
LOC285735	285735	genome.wustl.edu	37	6	133421282	133421282	+	RNA	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_026969.1	+1	predicted	NULL	0.000	541	0%	561	32.1%	0	-	-	-	-	-
TTLL2	83887	genome.wustl.edu	37	6	167753645	167753645	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031949.4	+1	validated	p.P86L	0.603	87	0%	118	32.2%	0	-	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	NULL
SDK1	221935	genome.wustl.edu	37	7	4285424	4285424	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152744.3	+1	validated	p.A2123V	0.000	18	0%	41	43.9%	1	100%	benign(0)	tolerated(0.71)	neutral(0.002)	NULL
TNRC18	84629	genome.wustl.edu	37	7	5364733	5364733	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080495.2	-1	provisional	p.K2098N	0.999	65	0%	60	33.3%	11	72.7%	unknown(0)	-	-	NULL
ISPD	729920	genome.wustl.edu	37	7	16445694	16445694	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101426.3	-1	validated	p.E176K	1.000	173	0%	205	30.7%	0	-	possibly_damaging(0.461)	tolerated(0.2)	neutral(0.200)	HMMPfam_IspD,superfamily_SSF53448
TNS3	64759	genome.wustl.edu	37	7	47409110	47409110	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022748.10	-1	validated	p.N378S	0.235	61	0%	55	29.1%	0	-	benign(0)	tolerated(1)	-	NULL
SRRT	51593	genome.wustl.edu	37	7	100473213	100473213	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015908.5	+1	validated	p.M1T	1.000	57	0%	55	32.7%	1	100%	unknown(0)	deleterious(0)	-	NULL
DNAJB9	4189	genome.wustl.edu	37	7	108213555	108213555	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012328.1	+1	provisional	p.R144C	1.000	343	0%	394	33%	4	50%	possibly_damaging(0.902)	deleterious(0.04)	deleterious(0.706)	NULL
KCND2	3751	genome.wustl.edu	37	7	119915538	119915538	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012281.2	+1	reviewed	p.D284	0.991	112	0%	164	35.4%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
ATG9B	285973	genome.wustl.edu	37	7	150721035	150721035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173681.5	-1	validated	p.P159L	1.000	10	0%	29	34.5%	0	-	possibly_damaging(0.631)	deleterious(0.01)	deleterious(0.626)	NULL
MLL3	58508	genome.wustl.edu	37	7	151904450	151904450	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170606.2	-1	reviewed	p.D1259G	1.000	558	0%	691	34.6%	2	0%	probably_damaging(0.984)	-	-	NULL
DPP6	1804	genome.wustl.edu	37	7	154667806	154667806	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377770	+1	known	p.V692fs	0.991	-	-	-	-	-	-	-	-	-	HMMPfam_Peptidase_S9,superfamily_alpha/beta-Hydrolases
LGI3	203190	genome.wustl.edu	37	8	22009001	22009001	+	Splice_Site	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139278.2	-1	validated	e7+1	1.000	36	0%	53	41.5%	0	-	-	-	-	-
TRIM35	23087	genome.wustl.edu	37	8	27156017	27156017	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_171982.3	-1	validated	p.M165I	0.997	40	0%	74	23%	0	-	benign(0.005)	tolerated(0.54)	neutral(0.007)	NULL
SLC20A2	6575	genome.wustl.edu	37	8	42297067	42297067	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006749.3	-1	provisional	p.A279T	0.391	271	0.4%	322	33.2%	2	50%	benign(0.02)	tolerated(0.46)	neutral(0.013)	HMMPfam_PHO4
ZFHX4	79776	genome.wustl.edu	37	8	77690514	77690514	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.T1029S	1.000	65	0%	133	34.6%	0	-	benign(0)	-	-	HMMSmart_SM00451,HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
INTS8	55656	genome.wustl.edu	37	8	95839981	95839981	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017864.2	+1	provisional	p.P160S	1.000	365	0%	398	32.9%	1	0%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	NULL
TRPS1	7227	genome.wustl.edu	37	8	116631928	116631928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014112.2	-1	reviewed	p.G133R	1.000	48	0%	58	34.5%	2	50%	probably_damaging(0.97)	deleterious(0)	deleterious(0.857)	NULL
ADCY8	114	genome.wustl.edu	37	8	131792687	131792687	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001115.2	-1	reviewed	p.G1235	0.881	139	0%	166	38%	0	-	-	-	-	NULL
ZC3H3	23144	genome.wustl.edu	37	8	144547909	144547909	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015117.2	-1	validated	p.G762D	1.000	45	0%	51	33.3%	29	58.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-CCCH,HMMSmart_SM00356,superfamily_CCCH zinc finger
ERMP1	79956	genome.wustl.edu	37	9	5811277	5811277	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024896.2	-1	validated	p.M387I	1.000	259	0%	273	30.8%	2	0%	benign(0.01)	tolerated(0.39)	neutral(0.017)	NULL
TYRP1	7306	genome.wustl.edu	37	9	12698500	12698500	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000550.2	+1	reviewed	p.T253R	1.000	335	0%	392	28.6%	0	-	benign(0.253)	tolerated(0.08)	neutral(0.326)	HMMPfam_Tyrosinase,superfamily_Di-copper_centre
TOPORS	10210	genome.wustl.edu	37	9	32542663	32542663	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005802.3	-1	reviewed	p.G620	0.619	243	0%	251	30.7%	2	50%	-	-	-	NULL
MIR2278	100313780	genome.wustl.edu	37	9	97572334	97572334	+	RNA	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000516344	+1	known	NULL	0.000	150	0%	198	29.3%	0	-	-	-	-	-
TXNDC8	255220	genome.wustl.edu	37	9	113096554	113096554	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003936.2	-1	validated	p.V24A	0.983	144	0%	139	19.4%	0	-	possibly_damaging(0.792)	deleterious(0.04)	deleterious(0.646)	superfamily_Thiordxn-like_fd,HMMPfam_Thioredoxin
DFNB31	25861	genome.wustl.edu	37	9	117240824	117240824	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000374057	-1	known	p.G282	0.000	53	0%	78	16.7%	2	50%	-	-	-	NULL
LHX6	26468	genome.wustl.edu	37	9	124967038	124967038	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199160.2	-1	reviewed	p.T359M	0.903	32	0%	45	35.6%	1	0%	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	NULL
GLE1	2733	genome.wustl.edu	37	9	131298671	131298671	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003722.1	+1	reviewed	p.Q562*	0.921	110	0%	137	32.1%	9	44.4%	-	-	-	HMMPfam_GLE1
MAMDC4	158056	genome.wustl.edu	37	9	139748476	139748476	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413647	+1	known	p.Q188*	1.000	29	0%	71	33.8%	2	100%	-	-	-	HMMPfam_MAM,HMMSmart_SM00137
CACNA1B	774	genome.wustl.edu	37	9	140773607	140773607	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000718.2	+1	validated	p.R129Q	0.968	45	0%	48	27.1%	0	-	benign(0.247)	tolerated(0.1)	neutral(0.311)	superfamily_Voltage-gated potassium channels
FAM188A	80013	genome.wustl.edu	37	10	15875682	15875682	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024948.2	-1	validated	p.T226M	1.000	354	0%	326	31.9%	1	100%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
CUBN	8029	genome.wustl.edu	37	10	17130276	17130276	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081.3	-1	reviewed	p.P612S	0.936	167	0%	235	30.6%	0	-	benign(0.377)	tolerated(0.86)	neutral(0.121)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
GPR158	57512	genome.wustl.edu	37	10	25886883	25886883	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020752.2	+1	validated	p.G776	0.000	57	0%	83	31.3%	0	-	-	-	-	NULL
ARID5B	84159	genome.wustl.edu	37	10	63850786	63850786	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032199.2	+1	validated	p.Q522*	0.901	191	0%	197	23.9%	1	100%	-	-	-	NULL
MYPN	84665	genome.wustl.edu	37	10	69966645	69966645	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032578.2	+1	validated	p.R1260G	0.941	123	0%	143	24.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
GRID1	2894	genome.wustl.edu	37	10	87362285	87362285	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000327946	-1	known	p.S708F	1.000	57	0%	74	25.7%	4	0%	-	-	-	NULL
PTEN	5728	genome.wustl.edu	37	10	89720799	89720802	+	Frame_Shift_Del	DEL	TACT	TACT	-	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	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
ZNF518A	9849	genome.wustl.edu	37	10	97916799	97916799	+	Silent	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371192	+1	known	p.H240	1.000	124	0%	209	26.3%	1	0%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PAX2	5076	genome.wustl.edu	37	10	102568906	102568906	+	Missense_Mutation	SNP	G	G	A	rs78914041		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003988.3	+1	reviewed	p.D278N	1.000	48	0%	55	41.8%	42	57.1%	benign(0.209)	tolerated(0.3)	neutral(0.049)	NULL
RBM20	282996	genome.wustl.edu	37	10	112572419	112572419	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134363.1	+1	reviewed	p.R755H	0.997	71	0%	87	39.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NRAP	4892	genome.wustl.edu	37	10	115406779	115406779	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198060.2	-1	validated	p.P299L	0.000	118	0%	173	35.8%	0	-	benign(0)	tolerated(0.22)	neutral(0.042)	NULL
GPR26	2849	genome.wustl.edu	37	10	125447609	125447609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153442.3	+1	validated	p.R316H	0.999	38	0%	59	22%	0	-	benign(0.092)	tolerated(0.13)	neutral(0.260)	superfamily_SSF81321
CHST15	51363	genome.wustl.edu	37	10	125804156	125804156	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015892.2	-1	validated	p.H276Y	1.000	36	0%	41	36.6%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_P-loop containing nucleoside triphosphate hydrolases
FAM175B	23172	genome.wustl.edu	37	10	126523400	126523400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032182.3	+1	validated	p.E370K	0.828	105	0%	93	33.3%	0	-	benign(0.397)	deleterious(0)	deleterious(0.572)	NULL
ENSG00000244242	0	genome.wustl.edu	37	11	1756620	1756620	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000340134	-1	known	p.V193M	0.989	119	0%	167	36.5%	9	11.1%	probably_damaging(0.991)	tolerated(0.11)	deleterious(0.716)	HMMPfam_CD225
OR51S1	119692	genome.wustl.edu	37	11	4869973	4869973	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004758.1	-1	provisional	p.I156V	0.001	53	0%	97	35.1%	0	-	possibly_damaging(0.939)	tolerated(0.45)	neutral(0.397)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CATSPER1	117144	genome.wustl.edu	37	11	65792899	65792899	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053054.3	-1	reviewed	p.Y318H	0.000	385	0%	461	31.2%	0	-	possibly_damaging(0.599)	tolerated(0.14)	neutral(0.457)	superfamily_Voltage-gated potassium channels
STARD10	10809	genome.wustl.edu	37	11	72469678	72469678	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006645.2	-1	validated	p.W119*	1.000	27	0%	63	41.3%	175	10.2%	-	-	-	HMMPfam_START,HMMSmart_START,superfamily_SSF55961
ALG8	79053	genome.wustl.edu	37	11	77812180	77812180	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024079.4	-1	reviewed	p.E471K	1.000	112	0%	152	38.8%	143	41.9%	benign(0.004)	tolerated(0.92)	-	HMMPfam_Alg6_Alg8
ENSG00000234376	0	genome.wustl.edu	37	11	89487105	89487105	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000411859	-1	known	p.W10*	0.893	194	0%	245	20.4%	0	-	-	-	-	NULL
DYNC2H1	79659	genome.wustl.edu	37	11	103191761	103191761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080463.1	+1	reviewed	p.A3917V	0.352	161	0.6%	178	29.8%	3	66.6%	benign(0)	tolerated(0.12)	neutral(0.261)	HMMPfam_Dynein_heavy
TRAPPC4	51399	genome.wustl.edu	37	11	118889983	118889983	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016146.4	+1	validated	p.R102	0.997	122	0%	157	34.4%	44	63.6%	-	-	-	HMMPfam_Sybindin,superfamily_SNARE-like
DCP1B	196513	genome.wustl.edu	37	12	2062241	2062241	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152640.3	-1	validated	p.Q289*	1.000	120	0%	137	44.5%	5	60%	-	-	-	NULL
AKAP3	10566	genome.wustl.edu	37	12	4736232	4736232	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006422.2	-1	reviewed	p.S612	0.000	42	0%	52	30.8%	1	100%	-	-	-	HMMPfam_AKAP_110,HMMSmart_SM00807
SLC38A2	54407	genome.wustl.edu	37	12	46758905	46758905	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018976.4	-1	validated	p.L211	0.765	235	0%	254	31.1%	5	0%	-	-	-	HMMPfam_Aa_trans
MLL2	8085	genome.wustl.edu	37	12	49433789	49433789	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003482.3	-1	validated	p.H2588	1.000	84	0%	107	34.6%	1	0%	-	-	-	NULL
GLS2	27165	genome.wustl.edu	37	12	56881845	56881845	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013267.2	-1	reviewed	p.R20*	0.898	16	0%	20	35%	0	-	-	-	-	NULL
PPFIA2	8499	genome.wustl.edu	37	12	81777850	81777850	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003625.2	-1	reviewed	p.L312	1.000	376	0%	415	29.6%	0	-	-	-	-	NULL
SOCS2	8835	genome.wustl.edu	37	12	93968497	93968497	+	Splice_Site	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003877.3	+1	reviewed	e2-1	1.000	103	0%	100	20%	0	-	-	-	-	-
RASAL1	8437	genome.wustl.edu	37	12	113537853	113537853	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004658.1	-1	reviewed	p.A766T	0.005	21	0%	37	45.9%	36	30.5%	possibly_damaging(0.514)	tolerated(0.1)	neutral(0.459)	NULL
FBXO21	23014	genome.wustl.edu	37	12	117603424	117603424	+	Splice_Site	SNP	T	T	C	rs113711299	byCluster	TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033624.2	-1	reviewed	e9-2	0.999	105	0%	108	37%	0	-	-	-	-	-
C12orf43	64897	genome.wustl.edu	37	12	121442174	121442174	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022895.1	-1	predicted	p.R191G	0.973	164	0.6%	207	34.8%	4	50%	possibly_damaging(0.832)	tolerated(0.2)	neutral(0.366)	NULL
POLE	5426	genome.wustl.edu	37	12	133201328	133201328	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006231.2	-1	validated	p.E2272	1.000	57	0%	79	32.9%	25	32%	-	-	-	NULL
OR4N5	390437	genome.wustl.edu	37	14	20612345	20612345	+	Missense_Mutation	SNP	G	G	A	rs77282548		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004724.1	+1	provisional	p.G151R	0.997	111	0%	177	35.6%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_7tm_1,superfamily_SSF81321
AKAP6	9472	genome.wustl.edu	37	14	33243013	33243013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004274.4	+1	reviewed	p.V1168I	1.000	94	0%	125	28.8%	0	-	possibly_damaging(0.722)	tolerated(0.36)	neutral(0.282)	HMMSmart_SM00150,superfamily_Spectrin repeat
YLPM1	56252	genome.wustl.edu	37	14	75265326	75265326	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019589.2	+1	validated	p.R1109Q	1.000	97	0%	135	29.6%	5	40%	possibly_damaging(0.668)	deleterious(0)	deleterious(0.681)	NULL
EIF2B2	8892	genome.wustl.edu	37	14	75471446	75471446	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014239.3	+1	reviewed	p.T147I	1.000	11	0%	27	37%	23	26%	benign(0.104)	tolerated(0.11)	neutral(0.280)	HMMPfam_IF-2B,superfamily_NagB/RpiA/CoA transferase-like
AHNAK2	113146	genome.wustl.edu	37	14	105408571	105408571	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.P4406L	0.957	98	0%	122	31.1%	1	100%	possibly_damaging(0.896)	tolerated(0.28)	neutral(0.385)	NULL
TRPM1	4308	genome.wustl.edu	37	15	31341667	31341667	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002420.4	-1	reviewed	p.R473C	0.999	198	0%	167	28.1%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
EIF2AK4	440275	genome.wustl.edu	37	15	40284381	40284381	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013703.2	+1	validated	p.D879	0.011	189	0.5%	182	26.9%	0	-	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
RPAP1	26015	genome.wustl.edu	37	15	41829196	41829196	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015540.2	-1	reviewed	p.A43V	0.785	80	0%	100	29%	0	-	benign(0.252)	tolerated(0.11)	neutral(0.298)	NULL
CASC4	113201	genome.wustl.edu	37	15	44673036	44673036	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138423.2	+1	reviewed	p.T312A	0.558	147	0%	147	28.6%	0	-	benign(0.371)	tolerated(0.95)	neutral(0.118)	NULL
DUOX1	53905	genome.wustl.edu	37	15	45455873	45455873	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017434.3	+1	reviewed	p.R1464	1.000	97	0%	138	11.6%	8	25%	-	-	-	HMMPfam_NAD_binding_6,superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain
GLDN	342035	genome.wustl.edu	37	15	51669724	51669724	+	Splice_Site	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000464150	+1	known	NULL	0.000	26	0%	35	25.7%	0	-	-	-	-	-
UNC13C	440279	genome.wustl.edu	37	15	54592414	54592414	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080534.1	+1	provisional	p.F1371V	1.000	311	0%	325	32.6%	0	-	probably_damaging(0.967)	tolerated(0.09)	deleterious(0.706)	NULL
PRTG	283659	genome.wustl.edu	37	15	55931865	55931865	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173814.4	-1	validated	p.A767T	1.000	264	0%	289	34.6%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
PRTG	283659	genome.wustl.edu	37	15	55971583	55971583	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173814.4	-1	validated	p.R345Q	1.000	200	0%	286	32.5%	0	-	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
MEGF11	84465	genome.wustl.edu	37	15	66208605	66208605	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032445.2	-1	validated	p.A742E	0.995	23	0%	40	35%	6	33.3%	benign(0.026)	tolerated(1)	neutral(0.001)	HMMSmart_SM00180,superfamily_EGF/Laminin
DIS3L	115752	genome.wustl.edu	37	15	66618428	66618428	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133375.3	+1	validated	p.R560*	0.508	117	0%	143	27.3%	2	100%	-	-	-	HMMPfam_RNB
PIAS1	8554	genome.wustl.edu	37	15	68473579	68473579	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016166.1	+1	reviewed	p.P504L	1.000	349	0%	457	34.6%	14	42.8%	possibly_damaging(0.784)	tolerated(0.06)	deleterious(0.616)	NULL
UBL7	84993	genome.wustl.edu	37	15	74741579	74741579	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032907.3	-1	validated	p.A277V	1.000	46	0%	77	39%	98	45.9%	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	NULL
C15orf39	56905	genome.wustl.edu	37	15	75500303	75500303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015492.4	+1	validated	p.M638I	0.012	34	0%	42	33.3%	4	75%	unknown(0)	deleterious(0.03)	-	NULL
SH3GL3	6457	genome.wustl.edu	37	15	84245350	84245350	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003027.3	+1	validated	p.L161	1.000	93	0%	121	28.9%	1	0%	-	-	-	HMMPfam_BAR,HMMSmart_SM00721
TTLL13	440307	genome.wustl.edu	37	15	90800387	90800387	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029964.2	+1	validated	p.G241	1.000	121	0%	135	32.6%	1	0%	-	-	-	HMMPfam_TTL,superfamily_SSF56059
CERS3	204219	genome.wustl.edu	37	15	101019643	101019643	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178842.3	-1	validated	p.Y169C	1.000	252	0%	358	34.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TRAM_LAG1_CLN8,HMMSmart_SM00724
PKD1	5310	genome.wustl.edu	37	16	2152547	2152547	+	Silent	SNP	C	C	T	rs190470234	by1000genomes	TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009944.2	-1	reviewed	p.T3012	0.988	16	0%	33	48.5%	5	40%	-	-	-	HMMPfam_GPS,HMMSmart_SM00303
SLX4	84464	genome.wustl.edu	37	16	3633244	3633244	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032444.2	-1	provisional	p.R1669	0.009	274	0%	318	36.2%	0	-	-	-	-	NULL
ERCC4	2072	genome.wustl.edu	37	16	14041848	14041848	+	Missense_Mutation	SNP	C	C	T	rs121913049	byCluster;byFrequency	TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005236.2	+1	reviewed	p.R799W	0.997	120	0%	182	33%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Restrict_endonuc_II-like_core
NOMO3	408050	genome.wustl.edu	37	16	16346331	16346331	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004067.2	+1	reviewed	p.A305	1.000	767	0%	792	16.8%	2	50%	-	-	-	NULL
DNAH3	55567	genome.wustl.edu	37	16	20975300	20975300	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.A3302	0.996	87	0%	162	37%	2	0%	-	-	-	NULL
EARS2	124454	genome.wustl.edu	37	16	23546599	23546599	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083614.1	-1	provisional	p.R190C	0.969	21	0%	27	29.6%	1	100%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_tRNA-synt_1c,superfamily_SSF52374
ATP2A1	487	genome.wustl.edu	37	16	28909708	28909708	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173201.2	+1	reviewed	p.R567Q	0.999	22	0%	35	28.6%	1	100%	possibly_damaging(0.833)	tolerated(0.15)	deleterious(0.558)	HMMPfam_Hydrolase,superfamily_Metal cation-transporting ATPase ATP-binding domain N,superfamily_Calcium ATPase transmembrane domain M
C16orf58	64755	genome.wustl.edu	37	16	31503605	31503605	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022744.2	-1	validated	p.A382T	0.999	18	0%	20	60%	21	38%	possibly_damaging(0.836)	tolerated(0.28)	neutral(0.351)	HMMPfam_DUF647
LPCAT2	54947	genome.wustl.edu	37	16	55579729	55579732	+	Frame_Shift_Del	DEL	AGTA	AGTA	-	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	AGTA	AGTA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017839.4	+1	reviewed	p.A313fs	0.997	-	-	-	-	-	-	-	-	-	superfamily_Glycerol-3-phosphate (1)-acyltransferase
TMCO7	79613	genome.wustl.edu	37	16	68961885	68961885	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024562.1	+1	validated	p.D848N	1.000	125	0%	135	31.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat,HMMPfam_DUF2435
CALB2	794	genome.wustl.edu	37	16	71416670	71416670	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001740.3	+1	reviewed	p.E131K	1.000	279	0%	376	36.4%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_EFh,PatternScan_EF_HAND_1,HMMPfam_efhand,superfamily_SSF47473
ZFHX3	463	genome.wustl.edu	37	16	72828222	72828222	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.P2787S	1.000	152	0%	173	28.3%	4	0%	probably_damaging(1)	-	-	NULL
KIAA1609	57707	genome.wustl.edu	37	16	84516214	84516214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020947.3	-1	validated	p.T354M	1.000	53	0%	122	23.8%	7	42.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TLD,HMMSmart_SM00584
FAM57A	79850	genome.wustl.edu	37	17	643805	643805	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024792.1	+1	provisional	p.T157A	1.000	197	0%	264	18.9%	4	0%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_TRAM_LAG1_CLN8,HMMSmart_SM00724
TIMM22	29928	genome.wustl.edu	37	17	904309	904309	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013337.2	+1	provisional	p.I189T	0.998	436	0%	570	33.2%	4	50%	benign(0.358)	deleterious(0)	deleterious(0.558)	HMMPfam_Tim17
ZMYND15	84225	genome.wustl.edu	37	17	4648551	4648551	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136046.1	+1	provisional	p.Y646	0.997	26	0%	20	45%	13	7.6%	-	-	-	NULL
FXR2	9513	genome.wustl.edu	37	17	7495857	7495857	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004860.3	-1	reviewed	p.R597Q	1.000	75	0%	122	31.1%	2	0%	possibly_damaging(0.885)	tolerated(0.08)	deleterious(0.646)	NULL
DNAH9	1770	genome.wustl.edu	37	17	11572724	11572724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.R989Q	0.975	43	0%	84	35.7%	0	-	benign(0.004)	tolerated(0.42)	neutral(0.014)	NULL
MYO15A	51168	genome.wustl.edu	37	17	18054733	18054733	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016239.3	+1	reviewed	p.R2560Q	0.993	79	0%	120	30.8%	0	-	possibly_damaging(0.656)	-	-	NULL
FLII	2314	genome.wustl.edu	37	17	18151108	18151108	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002018.2	-1	reviewed	p.V784M	1.000	10	0%	11	45.5%	31	35.4%	possibly_damaging(0.873)	deleterious(0.01)	deleterious(0.745)	HMMSmart_GEL,HMMPfam_Gelsolin,superfamily_SSF55753
SPECC1	92521	genome.wustl.edu	37	17	20135686	20135686	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033553.1	+1	validated	p.H773	0.984	19	0%	31	45.2%	16	25%	-	-	-	NULL
MYO18A	399687	genome.wustl.edu	37	17	27441987	27441987	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078471.3	-1	validated	p.D817Y	1.000	37	0%	56	23.2%	2	0%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
ACACA	31	genome.wustl.edu	37	17	35601625	35601625	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198834.1	-1	reviewed	p.P874L	1.000	125	0%	144	37.5%	1	100%	benign(0.077)	deleterious(0.05)	neutral(0.351)	HMMPfam_ACC_central
LOC100287863	100287863	genome.wustl.edu	37	17	37331839	37331839	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343513.1	+1	model	p.G51D	1.000	29	0%	34	23.5%	19	52.6%	-	-	-	NULL
KCNH4	23415	genome.wustl.edu	37	17	40328190	40328190	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012285.2	-1	reviewed	p.T237	1.000	41	0%	71	35.2%	0	-	-	-	-	superfamily_SSF81324
OSBPL7	114881	genome.wustl.edu	37	17	45886740	45886740	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145798.2	-1	reviewed	p.T662I	0.984	44	0%	74	37.8%	7	42.8%	possibly_damaging(0.808)	tolerated(0.25)	neutral(0.341)	HMMPfam_Oxysterol_BP
KIF19	124602	genome.wustl.edu	37	17	72348989	72348989	+	Silent	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153209.3	+1	validated	p.A670	0.998	161	0%	172	31.4%	7	28.5%	-	-	-	NULL
NUP85	79902	genome.wustl.edu	37	17	73230992	73230992	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447371	+1	known	p.R458C	0.000	23	0%	30	33.3%	7	57.1%	unknown(0)	-	-	NULL
SPHK1	8877	genome.wustl.edu	37	17	74382184	74382184	+	Silent	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182965.2	+1	validated	p.A129	0.000	43	0%	41	17.1%	1	0%	-	-	-	HMMPfam_DAGK_cat,HMMSmart_SM00046
BAHCC1	57597	genome.wustl.edu	37	17	79409907	79409907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000436173	+1	known	p.P511L	0.729	15	0%	23	47.8%	0	-	benign(0.176)	deleterious(0)	neutral(0.461)	NULL
HGS	9146	genome.wustl.edu	37	17	79667588	79667588	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004712.3	+1	provisional	p.P658	0.926	28	0%	30	46.7%	106	41.5%	-	-	-	NULL
DSG2	1829	genome.wustl.edu	37	18	29104786	29104786	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001943.3	+1	reviewed	p.E317K	1.000	165	0%	246	30.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
EPG5	57724	genome.wustl.edu	37	18	43481082	43481082	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020964.2	-1	validated	p.P1509S	0.854	67	0%	114	33.3%	1	0%	benign(0)	tolerated(0.17)	neutral(0.059)	NULL
TCF4	6925	genome.wustl.edu	37	18	52928750	52928750	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083962.1	-1	reviewed	p.G313R	1.000	62	0%	93	37.6%	3	0%	benign(0.019)	tolerated(0.05)	neutral(0.346)	NULL
PNPLA6	10908	genome.wustl.edu	37	19	7604814	7604814	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006702.4	+1	reviewed	p.I103V	0.998	13	0%	16	25%	0	-	benign(0.114)	tolerated(0.17)	neutral(0.068)	NULL
OLFM2	93145	genome.wustl.edu	37	19	9968037	9968037	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058164.2	-1	provisional	p.A161V	0.046	52	0%	65	36.9%	6	0%	benign(0.008)	tolerated(0.41)	neutral(0.015)	NULL
CYP4F2	8529	genome.wustl.edu	37	19	16008277	16008277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082.3	-1	reviewed	p.R49W	0.013	132	0%	155	29.7%	0	-	probably_damaging(0.975)	deleterious(0.01)	deleterious(0.823)	NULL
MYO9B	4650	genome.wustl.edu	37	19	17291838	17291838	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004145.3	+1	reviewed	p.R774	0.769	72	0%	106	32.1%	2	0%	-	-	-	HMMSmart_MYSc,superfamily_SSF52540
PGLS	25796	genome.wustl.edu	37	19	17628158	17628158	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012088.2	+1	validated	p.G153D	1.000	36	0%	59	37.3%	336	39.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glucosamine_iso,superfamily_SSF100950
COMP	1311	genome.wustl.edu	37	19	18893940	18893940	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000095.2	-1	reviewed	p.M717I	1.000	37	0%	37	10.8%	1	0%	possibly_damaging(0.918)	tolerated(0.44)	neutral(0.381)	HMMPfam_TSP_C,superfamily_ConA_like_lec_gl
WDR62	284403	genome.wustl.edu	37	19	36591674	36591674	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083961.1	+1	validated	p.R922C	0.002	43	0%	37	32.4%	0	-	benign(0)	tolerated(0.15)	neutral(0.241)	NULL
ZNF566	84924	genome.wustl.edu	37	19	36964304	36964304	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145343.1	-1	validated	p.C22	1.000	370	0%	474	27.2%	2	0%	-	-	-	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
RYR1	6261	genome.wustl.edu	37	19	38943579	38943579	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.S455	0.735	11	0%	18	50%	1	0%	-	-	-	HMMPfam_RYDR_ITPR
PSMC4	5704	genome.wustl.edu	37	19	40485861	40485861	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006503.2	+1	reviewed	p.A271T	1.000	146	0%	160	38.8%	155	53.5%	possibly_damaging(0.884)	deleterious(0.03)	deleterious(0.710)	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
ARHGAP35	2909	genome.wustl.edu	37	19	47425365	47425365	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.R1145*	1.000	53	0%	68	26.5%	2	50%	-	-	-	NULL
AP2A1	160	genome.wustl.edu	37	19	50302906	50302906	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014203.2	+1	reviewed	p.V385	1.000	10	0%	33	36.4%	10	30%	-	-	-	HMMPfam_Adaptin_N,superfamily_ARM repeat
SHANK1	50944	genome.wustl.edu	37	19	51165573	51165573	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016148.2	-1	validated	p.G2045	0.998	23	0%	24	33.3%	0	-	-	-	-	NULL
ZNF613	79898	genome.wustl.edu	37	19	52448926	52448926	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031721.3	+1	validated	p.A597V	0.024	51	0%	96	36.5%	17	70.5%	benign(0)	tolerated(0.14)	neutral(0.249)	NULL
NLRP13	126204	genome.wustl.edu	37	19	56419304	56419304	+	Silent	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176810.2	-1	validated	p.P767	0.001	101	0%	135	26.7%	0	-	-	-	-	superfamily_SSF52047
NLRP8	126205	genome.wustl.edu	37	19	56466226	56466226	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176811.2	+1	provisional	p.Q268*	0.000	155	0%	175	31.4%	1	0%	-	-	-	HMMPfam_NACHT,superfamily_P-loop containing nucleoside triphosphate hydrolases
ZNF135	7694	genome.wustl.edu	37	19	58578794	58578794	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000391699	+1	known	p.A332V	0.002	93	0%	108	32.4%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PIGU	128869	genome.wustl.edu	37	20	33222426	33222426	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080476.4	-1	reviewed	p.T174	0.010	190	0%	253	37.5%	7	42.8%	-	-	-	NULL
TRPC4AP	26133	genome.wustl.edu	37	20	33595429	33595429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015638.2	-1	validated	p.R537Q	1.000	85	0%	99	25.3%	10	30%	probably_damaging(0.992)	tolerated(0.06)	deleterious(0.770)	NULL
SLA2	84174	genome.wustl.edu	37	20	35242812	35242812	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032214.2	-1	reviewed	p.L187	0.996	73	0%	83	33.7%	0	-	-	-	-	superfamily_SH2 domain
CTNNBL1	56259	genome.wustl.edu	37	20	36431375	36431375	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030877.3	+1	reviewed	p.R380*	1.000	217	0%	234	32.1%	21	19%	-	-	-	superfamily_ARM repeat
SPATA2	9825	genome.wustl.edu	37	20	48522479	48522479	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135773.1	-1	validated	p.P414S	0.974	46	0%	52	34.6%	3	66.6%	benign(0.004)	tolerated(0.98)	-	NULL
GTPBP5	26164	genome.wustl.edu	37	20	60774244	60774244	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015666.3	+1	validated	p.S253T	0.004	70	0%	100	29%	14	50%	possibly_damaging(0.73)	tolerated(0.55)	neutral(0.274)	HMMPfam_MMR_HSR1,superfamily_SSF52540
MYT1	4661	genome.wustl.edu	37	20	62863622	62863622	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004535.2	+1	reviewed	p.G927	0.001	40	0%	53	32.1%	0	-	-	-	-	superfamily_SSF103637
C21orf91	54149	genome.wustl.edu	37	21	19165738	19165738	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100420.1	-1	validated	p.N296	0.997	346	0%	357	28%	11	45.4%	-	-	-	NULL
PHF21B	112885	genome.wustl.edu	37	22	45316328	45316328	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138415.3	-1	validated	p.V55I	1.000	22	0%	31	25.8%	0	-	benign(0.147)	deleterious(0)	neutral(0.458)	NULL
ENSG00000211459	0	genome.wustl.edu	37	MT	796	796	+	RNA	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389680	+1	known	NULL	NULL	198	0%	615	46.3%	5704	43.8%	-	-	-	-
PPP2R3B	28227	genome.wustl.edu	37	X	301565	301565	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013239.4	-1	reviewed	p.I429T	1.000	25	0%	35	25.7%	43	39.5%	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	superfamily_EF-hand
PPEF1	5475	genome.wustl.edu	37	X	18725908	18725908	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006240.2	+1	reviewed	p.C3	0.248	257	0%	330	23.9%	0	-	-	-	-	NULL
EIF1AX	1964	genome.wustl.edu	37	X	20159755	20159755	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001412.3	-1	reviewed	p.P2S	1.000	89	0%	91	24.2%	18	61.1%	unknown(0)	deleterious(0)	-	superfamily_Nucleic acid-binding proteins
PTCHD1	139411	genome.wustl.edu	37	X	23411729	23411729	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173495.2	+1	validated	p.A698	1.000	177	0%	230	32.6%	0	-	-	-	-	HMMPfam_Patched,superfamily_Multidrug efflux transporter AcrB transmembrane domain
RBM3	5935	genome.wustl.edu	37	X	48434775	48434775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006743.3	+1	reviewed	p.G95E	0.926	160	0%	209	26.8%	70	0%	unknown(0)	tolerated(0.1)	-	superfamily_SSF54928
KCND1	3750	genome.wustl.edu	37	X	48823129	48823129	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000419374	-1	known	p.R13W	0.000	136	0%	225	28.4%	0	-	-	-	-	NULL
HUWE1	10075	genome.wustl.edu	37	X	53574888	53574888	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031407.4	-1	reviewed	p.S3461L	1.000	200	0%	269	36.4%	6	83.3%	benign(0.429)	deleterious(0.01)	deleterious(0.545)	NULL
MED12	9968	genome.wustl.edu	37	X	70343021	70343021	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005120.2	+1	reviewed	p.R521H	1.000	293	0%	384	39.1%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ERCC6L	54821	genome.wustl.edu	37	X	71425833	71425833	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017669.2	-1	validated	p.L928	0.039	82	0%	86	34.9%	2	0%	-	-	-	NULL
BEX4	56271	genome.wustl.edu	37	X	102471398	102471398	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080425.2	+1	validated	p.T107fs	0.222	-	-	-	-	-	-	-	-	-	HMMPfam_BEX
IRS4	8471	genome.wustl.edu	37	X	107977281	107977281	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003604.2	-1	reviewed	p.N765S	0.004	117	0%	119	34.5%	0	-	benign(0.41)	tolerated(0.21)	neutral(0.176)	NULL
IL13RA1	3597	genome.wustl.edu	37	X	117895131	117895131	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001560.2	+1	reviewed	p.L236P	0.219	238	0.4%	289	36.7%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Fibronectin type III
RAP2C	57826	genome.wustl.edu	37	X	131351069	131351069	+	Silent	SNP	T	T	C	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021183.3	-1	provisional	p.Q76	1.000	209	0%	235	26.4%	6	66.6%	-	-	-	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
PNMA3	29944	genome.wustl.edu	37	X	152226589	152226589	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17F-01	TCGA-D1-A17F-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013364.4	+1	reviewed	p.R393*	0.001	49	0%	56	28.6%	0	-	-	-	-	NULL
