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
CAMTA1	23261	genome.wustl.edu	37	1	7806112	7806112	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015215.1	+1	validated	p.E1526D	0.997	227	0%	130	46.2%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF1B	23095	genome.wustl.edu	37	1	10435311	10435311	+	Splice_Site	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015074.3	+1	reviewed	e45-2	1.000	271	0%	146	15.1%	0	-	-	-	-	-
FBXO6	26270	genome.wustl.edu	37	1	11731405	11731405	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018438.5	+1	reviewed	p.D123E	0.081	54	0%	35	14.3%	19	26.3%	benign(0)	tolerated(1)	-	HMMPfam_FBA,superfamily_Galactose-binding domain-like
CROCC	9696	genome.wustl.edu	37	1	17272009	17272009	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014675.3	+1	validated	p.L682	1.000	17	0%	13	46.2%	2	100%	-	-	-	NULL
ARID1A	8289	genome.wustl.edu	37	1	27106039	27106039	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006015.4	+1	reviewed	p.T1884S	0.380	212	0%	129	11.6%	65	13.8%	possibly_damaging(0.662)	tolerated(0.48)	neutral(0.245)	NULL
MAP3K6	9064	genome.wustl.edu	37	1	27690824	27690824	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004672.3	-1	reviewed	p.C189Y	1.000	30	0%	24	20.8%	4	25%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TMEM39B	55116	genome.wustl.edu	37	1	32568213	32568213	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018056.2	+1	validated	p.L473S	1.000	145	0%	58	53.4%	68	54.4%	probably_damaging(0.996)	tolerated(0.15)	deleterious(0.703)	HMMPfam_Tmp39
HPCA	3208	genome.wustl.edu	37	1	33354872	33354872	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002143.2	+1	reviewed	p.V125M	1.000	102	0%	48	54.2%	0	-	probably_damaging(0.983)	deleterious(0)	deleterious(0.873)	HMMSmart_SM00054,HMMPfam_efhand,superfamily_EF-hand
DLGAP3	58512	genome.wustl.edu	37	1	35365869	35365869	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080418.1	-1	provisional	p.P371	0.961	141	0.7%	80	51.2%	0	-	-	-	-	NULL
MAP7D1	55700	genome.wustl.edu	37	1	36639006	36639006	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018067.3	+1	provisional	p.T222	0.019	69	0%	50	52%	40	52.5%	-	-	-	NULL
EPHA10	284656	genome.wustl.edu	37	1	38185646	38185646	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099439.1	-1	validated	p.G833S	1.000	37	0%	25	40%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
MACF1	23499	genome.wustl.edu	37	1	39920621	39920621	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033044.2	+1	reviewed	p.T5419M	0.986	302	0%	153	15%	47	4.2%	possibly_damaging(0.925)	tolerated(0.06)	deleterious(0.696)	HMMPfam_Spectrin,superfamily_Spectrin
SLFNL1	200172	genome.wustl.edu	37	1	41483477	41483477	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144990.3	-1	validated	p.E263Q	0.970	48	0%	31	51.6%	0	-	probably_damaging(0.998)	tolerated(0.09)	deleterious(0.771)	HMMPfam_AAA_4
CCDC24	149473	genome.wustl.edu	37	1	44459561	44459561	+	Splice_Site	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000463846	+1	known	NULL	0.981	32	0%	29	31%	0	-	-	-	-	-
KNCN	148930	genome.wustl.edu	37	1	47014940	47014940	+	Splice_Site	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001097611.1	-1	provisional	e2-1	0.626	29	0%	21	42.9%	0	-	-	-	-	-
ANKRD13C	81573	genome.wustl.edu	37	1	70781171	70781171	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030816.4	-1	validated	p.L219P	1.000	476	0%	219	36.1%	4	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Ankyrin repeat
LPAR3	23566	genome.wustl.edu	37	1	85279827	85279827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012152.2	-1	reviewed	p.G255D	1.000	142	0%	63	42.9%	2	50%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMPfam_7tm_1,superfamily_SSF81321
HFM1	164045	genome.wustl.edu	37	1	91781959	91781959	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017975.3	-1	validated	p.E963K	1.000	368	0%	190	12.1%	0	-	probably_damaging(1)	tolerated(0.24)	deleterious(0.537)	HMMPfam_Sec63
BTBD8	284697	genome.wustl.edu	37	1	92554363	92554363	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183242.3	+1	validated	p.H86Q	0.969	361	0%	186	18.8%	0	-	possibly_damaging(0.92)	tolerated(0.32)	neutral(0.395)	HMMSmart_SM00225,superfamily_POZ domain
PTBP2	58155	genome.wustl.edu	37	1	97271988	97271988	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021190.2	+1	reviewed	p.Q353R	1.000	512	0%	221	33.9%	4	75%	benign(0.008)	tolerated(0.1)	neutral(0.286)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
GPSM2	29899	genome.wustl.edu	37	1	109439526	109439526	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013296.4	+1	validated	p.R33C	1.000	458	0.2%	320	16.3%	4	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF48452
FAM40A	85369	genome.wustl.edu	37	1	110585882	110585882	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033088.2	+1	validated	p.R353Q	0.999	25	0%	19	42.1%	15	53.3%	possibly_damaging(0.613)	tolerated(0.6)	neutral(0.217)	HMMPfam_N1221
LOC100287536	100287536	genome.wustl.edu	37	1	111983900	111983900	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342100.1	+1	model	p.H82Y	0.999	182	0%	110	13.6%	123	1.6%	-	-	-	NULL
FAM46C	54855	genome.wustl.edu	37	1	118165591	118165591	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017709.3	+1	validated	p.P34H	1.000	163	0%	82	14.6%	24	16.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_DUF1693
WDR3	10885	genome.wustl.edu	37	1	118502046	118502046	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006784.2	+1	reviewed	p.E936	1.000	139	0%	102	11.8%	23	4.3%	-	-	-	HMMPfam_Utp12
RNF115	27246	genome.wustl.edu	37	1	145650506	145650506	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014455.2	+1	validated	p.R62Q	1.000	293	0%	245	20.8%	23	21.7%	benign(0.198)	tolerated(0.58)	neutral(0.024)	NULL
GJA8	2703	genome.wustl.edu	37	1	147380445	147380445	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005267.4	+1	reviewed	p.N121	0.657	77	0%	103	14.6%	0	-	-	-	-	HMMPfam_Connexin
BNIPL	149428	genome.wustl.edu	37	1	151018347	151018347	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138278.3	+1	validated	p.R309Q	1.000	444	0%	378	22%	0	-	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	HMMSmart_SM00516,superfamily_CRAL/TRIO domain
PI4KB	5298	genome.wustl.edu	37	1	151271348	151271348	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002651.1	-1	provisional	p.R663C	1.000	430	0.2%	420	26.2%	173	16.1%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_PI3_PI4_kinase,HMMSmart_SM00146,superfamily_Protein kinase-like (PK-like)
CGN	57530	genome.wustl.edu	37	1	151509750	151509750	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020770.2	+1	validated	p.F1180	0.922	146	0%	151	21.9%	22	0%	-	-	-	NULL
FLG	2312	genome.wustl.edu	37	1	152281955	152281955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.H1803Y	0.002	251	0%	331	23.6%	0	-	unknown(0)	deleterious(0.02)	-	NULL
AQP10	89872	genome.wustl.edu	37	1	154295790	154295790	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080429.2	+1	reviewed	p.T148	1.000	84	0%	141	29.8%	0	-	-	-	-	HMMPfam_MIP,superfamily_Aquaporin-like
ZBTB7B	51043	genome.wustl.edu	37	1	154987431	154987431	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015872.2	+1	validated	p.L99	0.983	41	0%	78	10.3%	106	24.5%	-	-	-	HMMSmart_BTB,superfamily_BTB/POZ_fold,HMMPfam_BTB
RUSC1-AS1	284618	genome.wustl.edu	37	1	155290764	155290764	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039517.1	-1	predicted	p.P172	0.895	68	0%	56	12.5%	0	-	-	-	-	NULL
RUSC1	23623	genome.wustl.edu	37	1	155291677	155291677	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105203.1	+1	validated	p.S38N	1.000	172	0%	190	24.7%	0	-	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	NULL
GON4L	54856	genome.wustl.edu	37	1	155735039	155735039	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037533.1	-1	validated	p.G1409R	0.032	255	0%	385	24.9%	8	12.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ARHGEF2	9181	genome.wustl.edu	37	1	155936259	155936259	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004723.3	-1	validated	p.A69	0.378	202	0%	165	20%	54	31.4%	-	-	-	NULL
IQGAP3	128239	genome.wustl.edu	37	1	156524156	156524156	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178229.4	-1	validated	p.A440V	1.000	100	0%	89	12.4%	2	0%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
BCAN	63827	genome.wustl.edu	37	1	156628397	156628398	+	Frame_Shift_Del	DEL	TA	TA	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	TA	TA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021948.3	+1	validated	p.Y834fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
MNDA	4332	genome.wustl.edu	37	1	158815499	158815499	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002432.1	+1	reviewed	p.G231	0.000	244	0%	233	23.2%	0	-	-	-	-	HMMPfam_HIN
CD244	51744	genome.wustl.edu	37	1	160811035	160811035	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016382.3	-1	reviewed	p.L207P	0.001	168	0%	180	17.8%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	superfamily_Immunoglobulin
PPOX	5498	genome.wustl.edu	37	1	161137244	161137244	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000309.3	+1	reviewed	p.G102	0.009	100	0%	99	12.1%	23	4.3%	-	-	-	HMMPfam_Amino_oxidase,superfamily_FAD/NAD(P)-binding domain
HSPA6	3310	genome.wustl.edu	37	1	161495420	161495420	+	Silent	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002155.3	+1	validated	p.R324	0.272	25	0%	38	26.3%	3	33.3%	-	-	-	HMMPfam_HSP70,superfamily_Actin-like ATPase domain
C1orf9	51430	genome.wustl.edu	37	1	172555059	172555059	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014283.3	+1	validated	p.T543	1.000	403	0%	586	23.2%	33	18.1%	-	-	-	NULL
FAM5B	57795	genome.wustl.edu	37	1	177250434	177250434	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021165.2	+1	provisional	p.Y708H	0.991	380	0%	465	23.4%	0	-	possibly_damaging(0.896)	deleterious(0)	deleterious(0.798)	NULL
RNF2	6045	genome.wustl.edu	37	1	185060871	185060871	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007212.3	+1	reviewed	p.G83D	1.000	658	0%	657	24.4%	18	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
TPR	7175	genome.wustl.edu	37	1	186324641	186324641	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003292.2	-1	reviewed	p.K691I	0.996	271	0%	253	24.9%	1	0%	probably_damaging(0.983)	deleterious(0)	deleterious(0.873)	NULL
TROVE2	6738	genome.wustl.edu	37	1	193046161	193046161	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004600.5	+1	validated	p.A356G	1.000	135	0%	145	11%	5	0%	benign(0.179)	deleterious(0)	neutral(0.461)	HMMPfam_TROVE
IL20	50604	genome.wustl.edu	37	1	207041890	207041890	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018724.3	+1	reviewed	p.W171*	1.000	92	0%	106	26.4%	3	0%	-	-	-	superfamily_4_helix_cytokine,HMMPfam_IL10,HMMSmart_IL10
TRAF5	7188	genome.wustl.edu	37	1	211526730	211526730	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033910.2	+1	reviewed	p.S50L	0.118	117	0%	145	26.2%	9	33.3%	benign(0)	tolerated(1)	-	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
FLVCR1	28982	genome.wustl.edu	37	1	213068596	213068596	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000419102	+1	known	p.R343Q	0.000	293	0%	203	20.7%	26	38.4%	-	-	-	NULL
ANGEL2	90806	genome.wustl.edu	37	1	213178414	213178414	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144567.3	-1	validated	p.K365N	0.995	383	0%	310	20%	10	20%	benign(0.003)	tolerated(0.32)	neutral(0.024)	HMMPfam_Exo_endo_phos,superfamily_DNase I-like
CENPF	1063	genome.wustl.edu	37	1	214816555	214816555	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016343.3	+1	reviewed	p.A1625V	0.973	166	0%	190	20.5%	9	11.1%	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	NULL
USH2A	7399	genome.wustl.edu	37	1	216363696	216363696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.A1422V	0.924	184	0.5%	214	23.4%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III,superfamily_Concanavalin A-like lectins/glucanases
RAB3GAP2	25782	genome.wustl.edu	37	1	220345334	220345334	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012414.3	-1	reviewed	p.R825H	1.000	431	0%	387	22.5%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TLR5	7100	genome.wustl.edu	37	1	223284841	223284841	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003268.5	-1	reviewed	p.H511Q	0.103	361	0%	389	11.3%	5	20%	benign(0)	tolerated(0.26)	neutral(0.034)	HMMPfam_LRR_1,HMMSmart_LRR_TYP,superfamily_SSF52058
PCNXL2	80003	genome.wustl.edu	37	1	233353660	233353660	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014801.3	-1	provisional	p.P892	0.866	132	0%	145	31.7%	6	33.3%	-	-	-	NULL
TBCE	6905	genome.wustl.edu	37	1	235612066	235612066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079515.1	+1	reviewed	p.V525M	1.000	133	0%	131	10.7%	47	27.6%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_SSF54236
B3GALNT2	148789	genome.wustl.edu	37	1	235647700	235647700	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152490.2	-1	validated	p.D165N	0.710	825	0.1%	1050	25.7%	23	34.7%	possibly_damaging(0.69)	tolerated(0.36)	neutral(0.267)	NULL
ACTN2	88	genome.wustl.edu	37	1	236907951	236907951	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001103.2	+1	reviewed	p.K427N	1.000	50	0%	42	11.9%	0	-	benign(0.001)	tolerated(0.46)	neutral(0.012)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
MTR	4548	genome.wustl.edu	37	1	236958927	236958928	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418145	+1	known	p.P104fs	0.000:0.000	-	-	-	-	-	-	-	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237664186	237664186	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.S793	1.000	598	0.2%	692	22.1%	0	-	-	-	-	HMMPfam_SPRY,HMMSmart_SM00449
RYR2	6262	genome.wustl.edu	37	1	237817651	237817653	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	AGA	AGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.E2637in_frame_del	0.453:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
SDCCAG8	10806	genome.wustl.edu	37	1	243579024	243579024	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006642.2	+1	validated	p.Q546R	1.000	303	0.3%	340	10.9%	27	25.9%	possibly_damaging(0.836)	deleterious(0.02)	deleterious(0.703)	NULL
KIF26B	55083	genome.wustl.edu	37	1	245530261	245530261	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018012.3	+1	provisional	p.E197	1.000	43	0%	61	9.8%	11	0%	-	-	-	NULL
AHCTF1	25909	genome.wustl.edu	37	1	247058023	247058023	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015446.4	-1	validated	p.R581H	0.985	153	0%	157	23.6%	1	0%	benign(0.269)	tolerated(0.13)	neutral(0.281)	NULL
OR2T8	343172	genome.wustl.edu	37	1	248084383	248084383	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005522.1	+1	validated	p.H22Y	0.005	655	0%	605	21.3%	0	-	probably_damaging(0.974)	tolerated(0.13)	deleterious(0.668)	superfamily_SSF81321
OR2L2	26246	genome.wustl.edu	37	1	248202295	248202295	+	Silent	SNP	C	C	T	rs118122259	by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004686.2	+1	provisional	p.T242	0.953	774	0%	878	11.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
FAM150B	285016	genome.wustl.edu	37	2	286290	286290	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002919.2	-1	validated	p.G103C	1.000	115	0%	108	13.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TMEM18	129787	genome.wustl.edu	37	2	675573	675573	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152834.2	-1	validated	p.V39M	1.000	135	0%	78	50%	196	50%	possibly_damaging(0.527)	deleterious(0.03)	deleterious(0.542)	NULL
ADCY3	109	genome.wustl.edu	37	2	25043704	25043704	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004036.3	-1	reviewed	p.G1047	0.976	110	0.9%	58	50%	22	40.9%	-	-	-	HMMPfam_Guanylate_cyc,HMMSmart_CYCc,superfamily_A/G_cyclase
FOSL2	2355	genome.wustl.edu	37	2	28635007	28635007	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005253.3	+1	reviewed	p.P225A	1.000	43	0%	17	35.3%	7	71.4%	probably_damaging(0.979)	tolerated(0.13)	deleterious(0.674)	NULL
PPP1CB	5500	genome.wustl.edu	37	2	29022133	29022133	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002709.2	+1	reviewed	p.T316	1.000	485	0%	241	19.9%	125	27.2%	-	-	-	NULL
CLIP4	79745	genome.wustl.edu	37	2	29404669	29404669	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024692.4	+1	validated	p.T676	1.000	481	0%	228	40.4%	0	-	-	-	-	HMMPfam_CAP_GLY,superfamily_Cap-Gly domain
ALK	238	genome.wustl.edu	37	2	29462665	29462665	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004304.3	-1	reviewed	p.G746C	1.000	67	0%	36	41.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LCLAT1	253558	genome.wustl.edu	37	2	30682516	30682516	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182551.3	+1	validated	p.N13S	0.311	845	0.1%	427	10.5%	0	-	benign(0.221)	-	-	NULL
BIRC6	57448	genome.wustl.edu	37	2	32740803	32740803	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.S3772L	1.000	152	0%	98	21.4%	9	0%	benign(0.195)	tolerated(0.33)	neutral(0.042)	NULL
BIRC6	57448	genome.wustl.edu	37	2	32824935	32824935	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.R4654*	1.000	147	0%	79	43%	13	15.3%	-	-	-	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
MAP4K3	8491	genome.wustl.edu	37	2	39481629	39481629	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003618.2	-1	reviewed	p.K835*	1.000	409	0%	152	45.4%	6	16.6%	-	-	-	HMMPfam_CNH,HMMSmart_SM00036
PREPL	9581	genome.wustl.edu	37	2	44566305	44566305	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006036.4	-1	reviewed	p.G317E	1.000	221	0%	136	44.1%	8	50%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_Peptidase_S9_N,superfamily_Prolyl oligopeptidase N-terminal domain
FBXO11	80204	genome.wustl.edu	37	2	48063064	48063064	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025133.3	-1	reviewed	p.N138D	1.000	206	0%	101	13.9%	1	0%	benign(0.007)	tolerated(0.45)	neutral(0.012)	superfamily_SSF81383
FBXO11	80204	genome.wustl.edu	37	2	48066805	48066805	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025133.3	-1	reviewed	p.A28	1.000	243	0%	89	43.8%	7	0%	-	-	-	NULL
PPP3R1	5534	genome.wustl.edu	37	2	68414433	68414433	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000945.3	-1	validated	p.G78	0.916	78	0%	56	17.9%	14	42.8%	-	-	-	HMMSmart_SM00054,HMMPfam_efhand,superfamily_EF-hand
ARHGAP25	9938	genome.wustl.edu	37	2	69034595	69034595	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000497259	+1	known	p.S78N	1.000	331	0%	146	47.9%	0	-	-	-	-	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
MPHOSPH10	10199	genome.wustl.edu	37	2	71361825	71361825	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005791.1	+1	reviewed	p.T332	1.000	624	0%	254	11%	10	10%	-	-	-	HMMPfam_Mpp10
PTCD3	55037	genome.wustl.edu	37	2	86364216	86364216	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017952.5	+1	validated	p.G644	0.127	378	0%	241	42.3%	48	50%	-	-	-	NULL
MRPL35	51318	genome.wustl.edu	37	2	86434439	86434439	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016622.3	+1	reviewed	p.V123M	0.990	243	0%	96	47.9%	30	40%	possibly_damaging(0.885)	deleterious(0)	deleterious(0.790)	HMMPfam_MRP-L35
IGKV1-16	28938	genome.wustl.edu	37	2	89399448	89399448	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000479981	-1	known	p.S85	0.997	701	0.1%	484	16.5%	1	0%	-	-	-	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
LOC344065	344065	genome.wustl.edu	37	2	95881243	95881243	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_292895.7	+1	model	p.S503	0.080	94	1.1%	46	21.7%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
SNRNP200	23020	genome.wustl.edu	37	2	96944305	96944305	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014014.3	-1	reviewed	p.Y1823C	1.000	92	0%	67	46.3%	254	52.3%	benign(0.413)	deleterious(0.04)	deleterious(0.482)	HMMPfam_Sec63,HMMSmart_SM00611
CNNM4	26504	genome.wustl.edu	37	2	97427302	97427302	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020184.3	+1	reviewed	p.I189N	0.109	94	0%	57	19.3%	3	0%	possibly_damaging(0.871)	deleterious(0)	deleterious(0.783)	HMMPfam_DUF21
TMEM131	23505	genome.wustl.edu	37	2	98431678	98431679	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015348.1	-1	validated	p.A425fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
RANBP2	5903	genome.wustl.edu	37	2	109381654	109381654	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006267.4	+1	reviewed	p.L1553	0.000	368	0%	259	12.4%	27	18.5%	-	-	-	HMMPfam_zf-RanBP,HMMSmart_ZnF_RBZ,PatternScan_ZF_RANBP2_1
TTL	150465	genome.wustl.edu	37	2	113243551	113243551	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153712.4	+1	validated	p.C72Y	1.000	91	0%	76	47.4%	1	100%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
TTL	150465	genome.wustl.edu	37	2	113277984	113277984	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153712.4	+1	validated	p.G334D	1.000	181	0%	148	12.2%	9	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_TTL,superfamily_Glutathione synthetase ATP-binding domain-like
SLC20A1	6574	genome.wustl.edu	37	2	113416607	113416608	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005415.3	+1	provisional	p.R332fs	0.023:0.531	-	-	-	-	-	-	-	-	-	HMMPfam_PHO4
ERCC3	2071	genome.wustl.edu	37	2	128044522	128044522	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000122.1	-1	reviewed	p.S367P	1.000	153	0%	71	11.3%	53	1.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ResIII,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
POTEF	728378	genome.wustl.edu	37	2	130832880	130832880	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099771.2	-1	validated	p.A722V	1.000	147	0%	64	34.4%	0	-	possibly_damaging(0.91)	deleterious(0)	deleterious(0.807)	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
POTEE	445582	genome.wustl.edu	37	2	132021474	132021474	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083538.1	+1	validated	p.R816C	1.000	223	0%	85	32.9%	652	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Actin,HMMSmart_SM00268,PatternScan_ACTINS_ACT_LIKE,superfamily_Actin-like ATPase domain
LCT	3938	genome.wustl.edu	37	2	136570167	136570167	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002299.2	-1	reviewed	p.R689	1.000	164	0%	121	11.6%	0	-	-	-	-	HMMPfam_Glyco_hydro_1,superfamily_Glyco_hydro_cat
CACNB4	785	genome.wustl.edu	37	2	152698417	152698417	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000726.3	-1	reviewed	p.Q434H	1.000	523	0%	135	11.9%	0	-	probably_damaging(0.991)	deleterious(0.03)	deleterious(0.808)	HMMPfam_Ca_channel_B
BAZ2B	29994	genome.wustl.edu	37	2	160295639	160295639	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013450.2	-1	validated	p.S261G	1.000	566	0.2%	237	11.8%	0	-	possibly_damaging(0.889)	deleterious(0.01)	deleterious(0.755)	NULL
KCNH7	90134	genome.wustl.edu	37	2	163279937	163279937	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033272.2	-1	reviewed	p.R688H	1.000	616	0%	382	41.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_cAMP-binding domain-like
XIRP2	129446	genome.wustl.edu	37	2	168102007	168102007	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152381.4	+1	validated	p.Y1369H	1.000	555	0%	359	14.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
METTL5	29081	genome.wustl.edu	37	2	170672016	170672016	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014168.2	-1	provisional	p.E171G	1.000	111	0%	50	12%	46	6.5%	benign(0.009)	deleterious(0.03)	neutral(0.365)	superfamily_SSF53335
ZAK	51776	genome.wustl.edu	37	2	174068525	174068525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016653.2	+1	reviewed	p.R224K	1.000	386	0%	198	53%	4	50%	probably_damaging(0.992)	deleterious(0.02)	deleterious(0.831)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
ANKAR	150709	genome.wustl.edu	37	2	190541739	190541739	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144708.3	+1	validated	p.W104R	1.000	118	0%	70	51.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Ankyrin repeat
MFSD6	54842	genome.wustl.edu	37	2	191301018	191301018	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017694.3	+1	validated	p.L88P	0.977	410	0.2%	294	20.4%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
ANKRD44	91526	genome.wustl.edu	37	2	197863774	197863774	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153697.1	-1	provisional	p.T816I	1.000	150	0%	81	35.8%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
TYW5	129450	genome.wustl.edu	37	2	200797958	200797958	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039693.2	-1	validated	p.K260N	1.000	217	0%	147	11.6%	1	0%	benign(0.013)	tolerated(0.33)	neutral(0.025)	HMMSmart_SM00558,superfamily_Clavaminate synthase-like
ALS2CR11	151254	genome.wustl.edu	37	2	202436716	202436716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152525.5	-1	validated	p.P261S	0.998	174	0%	128	10.2%	0	-	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	NULL
FZD7	8324	genome.wustl.edu	37	2	202900408	202900408	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003507.1	+1	reviewed	p.F346	1.000	20	0%	18	22.2%	1	0%	-	-	-	HMMPfam_Frizzled
PIKFYVE	200576	genome.wustl.edu	37	2	209215639	209215639	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015040.3	+1	reviewed	p.G1860D	1.000	174	0%	107	15%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PIP5K,HMMSmart_SM00330,superfamily_SAICAR synthase-like
SMARCAL1	50485	genome.wustl.edu	37	2	217279817	217279817	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127207.1	+1	reviewed	p.P130	0.007	651	0.3%	330	47%	3	0%	-	-	-	NULL
WDFY1	57590	genome.wustl.edu	37	2	224760221	224760221	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020830.3	-1	reviewed	p.H242R	1.000	223	0.4%	148	17.6%	30	3.3%	probably_damaging(0.991)	tolerated(0.4)	neutral(0.460)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
COL4A3	1285	genome.wustl.edu	37	2	228122353	228122353	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000091.3	+1	reviewed	p.R341H	1.000	192	0%	131	38.9%	0	-	unknown(0)	tolerated(0.13)	-	HMMPfam_Collagen
SP140L	93349	genome.wustl.edu	37	2	231235669	231235669	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138402.4	+1	provisional	p.A190	0.001	110	0%	59	15.3%	0	-	-	-	-	NULL
CNTN6	27255	genome.wustl.edu	37	3	1414033	1414033	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014461.2	+1	reviewed	p.E515K	1.000	336	0%	184	12.5%	0	-	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
ATG7	10533	genome.wustl.edu	37	3	11468322	11468322	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006395.2	+1	validated	p.K667N	1.000	159	0.6%	84	41.7%	19	52.6%	possibly_damaging(0.77)	tolerated(0.12)	deleterious(0.546)	superfamily_Activating enzymes of the ubiquitin-like proteins
XPC	7508	genome.wustl.edu	37	3	14190327	14190327	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004628.4	-1	reviewed	p.A746D	1.000	39	0%	30	16.7%	57	12.2%	possibly_damaging(0.943)	deleterious(0)	deleterious(0.832)	NULL
COLQ	8292	genome.wustl.edu	37	3	15563048	15563048	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005677.3	-1	reviewed	p.S29G	0.937	288	0.3%	113	15%	0	-	unknown(0)	-	-	NULL
ANKRD28	23243	genome.wustl.edu	37	3	15751244	15751244	+	Splice_Site	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015199.2	-1	provisional	e13-1	1.000	59	0%	34	14.7%	0	-	-	-	-	-
VILL	50853	genome.wustl.edu	37	3	38047992	38047992	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015873.3	+1	reviewed	p.A753V	0.000	123	0%	63	54%	0	-	benign(0)	tolerated(0.6)	neutral(0.004)	NULL
DLEC1	9940	genome.wustl.edu	37	3	38151597	38151597	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007337.2	+1	reviewed	p.Q1090*	0.002	106	0%	61	29.5%	0	-	-	-	-	NULL
SCN5A	6331	genome.wustl.edu	37	3	38592427	38592427	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099404.1	-1	reviewed	p.S1812	0.435	207	0%	120	56.7%	0	-	-	-	-	NULL
SCN10A	6336	genome.wustl.edu	37	3	38739881	38739881	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006514.2	-1	validated	p.I1610	0.999	463	0%	275	47.3%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_SSF81324
SCN10A	6336	genome.wustl.edu	37	3	38755451	38755451	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006514.2	-1	validated	p.R1268W	1.000	200	0%	84	39.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_SSF81324
CCR8	1237	genome.wustl.edu	37	3	39374668	39374668	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005201.3	+1	reviewed	p.T282	0.995	201	0%	161	47.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ZNF445	353274	genome.wustl.edu	37	3	44489574	44489574	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181489.5	-1	validated	p.R530Q	0.021	271	0%	160	15%	3	33.3%	probably_damaging(0.999)	tolerated(0.7)	deleterious(0.492)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
SACM1L	22908	genome.wustl.edu	37	3	45751121	45751121	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014016.3	+1	validated	p.E155D	0.978	196	0%	121	39.7%	17	58.8%	benign(0.104)	tolerated(0.1)	neutral(0.294)	HMMPfam_Syja_N
WDR6	11180	genome.wustl.edu	37	3	49051142	49051142	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018031.3	+1	reviewed	p.M755I	0.353	39	0%	27	33.3%	176	28.4%	benign(0)	tolerated(0.5)	neutral(0.010)	superfamily_WD40 repeat-like
LAMB2	3913	genome.wustl.edu	37	3	49161680	49161680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002292.3	-1	reviewed	p.R1123W	1.000	27	0%	20	50%	48	54.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,PatternScan_EGF_LAM_1,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_SSF57196
BSN	8927	genome.wustl.edu	37	3	49689007	49689007	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.A673V	1.000	54	0%	41	24.4%	0	-	benign(0.022)	-	-	NULL
ZMYND10	51364	genome.wustl.edu	37	3	50382592	50382592	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015896.2	-1	validated	p.G55fs	0.998	-	-	-	-	-	-	-	-	-	NULL
DOCK3	1795	genome.wustl.edu	37	3	51413179	51413179	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004947.3	+1	validated	p.P1805S	1.000	150	0%	119	10.9%	0	-	benign(0.004)	tolerated(0.16)	neutral(0.059)	NULL
DOCK3	1795	genome.wustl.edu	37	3	51413266	51413266	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004947.3	+1	validated	p.G1834C	1.000	125	0%	86	19.8%	0	-	probably_damaging(0.967)	deleterious(0.01)	deleterious(0.815)	NULL
POC1A	25886	genome.wustl.edu	37	3	52183236	52183236	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015426.4	-1	validated	p.R149C	1.000	52	0%	25	36%	30	50%	possibly_damaging(0.896)	deleterious(0.02)	deleterious(0.736)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
GNL3	26354	genome.wustl.edu	37	3	52727344	52727344	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014366.4	+1	validated	p.G396C	1.000	261	0.4%	204	47.1%	156	52.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CACNA2D3	55799	genome.wustl.edu	37	3	54913048	54913048	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018398.2	+1	reviewed	p.R572G	0.863	87	0%	55	50.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FOXP1	27086	genome.wustl.edu	37	3	71090537	71090537	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032682.4	-1	reviewed	p.M271L	0.984	155	0%	138	24.6%	2	0%	benign(0)	tolerated(1)	-	NULL
CNTN3	5067	genome.wustl.edu	37	3	74383985	74383985	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020872.1	-1	validated	p.V523	0.168	404	0%	214	43%	2	100%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
NSUN3	63899	genome.wustl.edu	37	3	93845073	93845073	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022072.3	+1	provisional	p.L254	0.294	155	0%	79	22.8%	6	0%	-	-	-	HMMPfam_Nol1_Nop2_Fmu,superfamily_SSF53335
LOC391556	391556	genome.wustl.edu	37	3	96285463	96285463	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342412.1	+1	model	p.Q88R	1.000	120	0%	87	26.4%	0	-	-	-	-	NULL
KALRN	8997	genome.wustl.edu	37	3	124438117	124438117	+	Nonsense_Mutation	SNP	G	G	T	rs184120997	by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024660.3	+1	reviewed	p.E2921*	1.000	93	0%	63	36.5%	0	-	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
HEG1	57493	genome.wustl.edu	37	3	124729337	124729337	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020733.1	-1	validated	p.R1007fs	0.003	-	-	-	-	-	-	-	-	-	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
RAB43	339122	genome.wustl.edu	37	3	128813954	128813954	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198490.1	-1	validated	p.Y88C	1.000	58	0%	41	19.5%	32	31.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
COL6A6	131873	genome.wustl.edu	37	3	130380897	130380898	+	Frame_Shift_Del	DEL	AA	AA	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	AA	AA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102608.1	+1	provisional	p.K2083fs	1.000:0.998	-	-	-	-	-	-	-	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
MRPL3	11222	genome.wustl.edu	37	3	131217093	131217093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007208.2	-1	reviewed	p.T133M	0.938	377	0.3%	150	34.7%	89	39.3%	possibly_damaging(0.624)	tolerated(0.29)	neutral(0.246)	HMMPfam_Ribosomal_L3,superfamily_Translation proteins
ACPP	55	genome.wustl.edu	37	3	132068794	132068794	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134194.1	+1	reviewed	p.M271T	0.721	271	0%	135	16.3%	1	0%	possibly_damaging(0.93)	deleterious(0.01)	deleterious(0.782)	HMMPfam_Acid_phosphat_A,superfamily_SSF53254
DNAJC13	23317	genome.wustl.edu	37	3	132153404	132153404	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015268.3	+1	validated	p.I4F	1.000	286	0%	135	44.4%	0	-	possibly_damaging(0.491)	deleterious(0.03)	deleterious(0.528)	NULL
TF	7018	genome.wustl.edu	37	3	133467344	133467344	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001063.3	+1	reviewed	p.H44	0.000	101	0%	32	31.2%	0	-	-	-	-	HMMPfam_Transferrin,HMMSmart_SM00094,superfamily_Periplasmic binding protein-like II
TF	7018	genome.wustl.edu	37	3	133487001	133487001	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001063.3	+1	reviewed	p.A539T	1.000	218	0%	140	42.9%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Transferrin,HMMSmart_SM00094,PatternScan_TRANSFERRIN_2,superfamily_Periplasmic binding protein-like II
STAG1	10274	genome.wustl.edu	37	3	136068075	136068075	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005862.2	-1	reviewed	p.G1066R	1.000	399	0%	157	23.6%	11	9%	possibly_damaging(0.696)	tolerated(0.13)	deleterious(0.502)	NULL
LOC729687	729687	genome.wustl.edu	37	3	141584057	141584058	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	TG	TG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001133695.3	-1	model	p.Q22fs	0.042:0.043	-	-	-	-	-	-	-	-	-	HMMPfam_HMG14_17,HMMSmart_SM00527
ARHGEF26	26084	genome.wustl.edu	37	3	153935685	153935685	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015595.3	+1	validated	p.R625G	0.993	68	0%	17	64.7%	0	-	possibly_damaging(0.926)	tolerated(0.08)	deleterious(0.674)	superfamily_DBL homology domain (DH-domain)
GMPS	8833	genome.wustl.edu	37	3	155640006	155640006	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003875.2	+1	reviewed	p.A450D	1.000	89	0%	32	31.2%	14	50%	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	superfamily_Adenine nucleotide alpha hydrolases-like
PPM1L	151742	genome.wustl.edu	37	3	160679655	160679655	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139245.2	+1	provisional	p.D177	1.000	566	0.2%	191	47.1%	1	100%	-	-	-	HMMSmart_SM00331,HMMSmart_SM00332,superfamily_Protein serine/threonine phosphatase 2C catalytic domain,HMMPfam_PP2C
NAALADL2	254827	genome.wustl.edu	37	3	174814823	174814823	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207015.2	+1	validated	p.R96M	1.000	338	0%	194	25.3%	1	0%	probably_damaging(0.958)	deleterious(0)	deleterious(0.846)	NULL
PIK3CA	5290	genome.wustl.edu	37	3	178921549	178921549	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.V344A	1.000	278	0%	99	47.5%	2	50%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMSmart_C2,HMMSmart_PI3K_C2,superfamily_C2_CaLB
PIK3CA	5290	genome.wustl.edu	37	3	178937422	178937422	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.C604R	1.000	207	0%	104	50%	1	100%	possibly_damaging(0.778)	deleterious(0)	deleterious(0.736)	HMMPfam_PI3Ka,HMMSmart_PI3Ka,superfamily_ARM-type_fold
CCDC39	339829	genome.wustl.edu	37	3	180334304	180334304	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181426.1	-1	validated	p.Q862H	1.000	148	0%	82	15.9%	1	0%	unknown(0)	-	-	NULL
ECE2	9718	genome.wustl.edu	37	3	184008917	184008917	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014693.3	+1	validated	p.E760*	1.000	56	0%	41	51.2%	0	-	-	-	-	"HMMPfam_Peptidase_M13,superfamily_Metalloproteases (""zincins"") catalytic domain"
CPN2	1370	genome.wustl.edu	37	3	194062762	194062762	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080513.2	-1	validated	p.L224M	0.860	44	0%	27	29.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00364,superfamily_RNI-like
MIR573	693158	genome.wustl.edu	37	4	24521840	24521840	+	RNA	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384964	-1	known	NULL	0.001	1007	0%	433	37.4%	0	-	-	-	-	-
SLC30A9	10463	genome.wustl.edu	37	4	42077675	42077675	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006345.3	+1	validated	p.A474T	1.000	292	0%	124	47.6%	39	56.4%	possibly_damaging(0.729)	tolerated(0.06)	deleterious(0.588)	HMMPfam_Cation_efflux
ATP10D	57205	genome.wustl.edu	37	4	47565601	47565601	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020453.3	+1	validated	p.A891V	1.000	159	0%	78	15.4%	3	0%	possibly_damaging(0.854)	deleterious(0)	deleterious(0.774)	superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N
NOA1	84273	genome.wustl.edu	37	4	57832825	57832825	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032313.2	-1	provisional	p.D575	0.011	293	0%	120	45.8%	88	48.8%	-	-	-	NULL
ENAM	10117	genome.wustl.edu	37	4	71507811	71507811	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031889.2	+1	reviewed	p.D223G	1.000	1426	0%	765	46.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BMP2K	55589	genome.wustl.edu	37	4	79763642	79763642	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198892.1	+1	reviewed	p.L169	1.000	245	0%	111	40.5%	2	100%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
WDFY3	23001	genome.wustl.edu	37	4	85696066	85696066	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014991.4	-1	reviewed	p.R1554Q	1.000	536	0%	259	38.2%	0	-	possibly_damaging(0.525)	tolerated(0.68)	neutral(0.179)	NULL
PTPN13	5783	genome.wustl.edu	37	4	87672020	87672020	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080685.2	+1	reviewed	p.A1016	1.000	169	0%	89	46.1%	0	-	-	-	-	NULL
MEPE	56955	genome.wustl.edu	37	4	88767395	88767395	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020203.3	+1	validated	p.H459N	0.000	353	0%	223	12.1%	0	-	benign(0)	tolerated(1)	-	NULL
NEUROG2	63973	genome.wustl.edu	37	4	113436014	113436014	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024019.2	-1	provisional	p.D206E	1.000	6	0.000	10	0.500	17	47%	possibly_damaging(0.666)	tolerated(0.06)	deleterious(0.558)	NULL
MYOZ2	51778	genome.wustl.edu	37	4	120107305	120107305	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016599.3	+1	validated	p.T249A	0.793	265	0%	118	44.9%	0	-	unknown(0)	tolerated(0.3)	-	HMMPfam_Calsarcin
QRFPR	84109	genome.wustl.edu	37	4	122301700	122301700	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198179.2	-1	validated	p.V35I	0.999	47	0%	19	31.6%	0	-	possibly_damaging(0.744)	deleterious(0.03)	deleterious(0.637)	superfamily_SSF81321
FAT4	79633	genome.wustl.edu	37	4	126238731	126238731	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.A389T	0.677	32	0%	21	28.6%	0	-	benign(0.007)	deleterious(0.03)	neutral(0.364)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126239421	126239421	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.R619C	1.000	95	0%	54	46.3%	0	-	probably_damaging(0.987)	tolerated(0.07)	deleterious(0.756)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PHF17	79960	genome.wustl.edu	37	4	129767597	129767597	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199320.2	+1	validated	p.Y69S	1.000	429	0%	204	12.3%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_EPL1
LRBA	987	genome.wustl.edu	37	4	151518235	151518235	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006726.2	-1	validated	p.A2027S	0.000	226	0%	125	42.4%	0	-	benign(0)	tolerated(0.42)	neutral(0.014)	HMMPfam_DUF1088
KIAA0922	23240	genome.wustl.edu	37	4	154517412	154517412	+	Silent	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015196.3	+1	validated	p.G665	0.008	362	0%	208	41.3%	1	0%	-	-	-	NULL
LRAT	9227	genome.wustl.edu	37	4	155665691	155665691	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004744.3	+1	reviewed	p.A71	0.998	85	0%	30	16.7%	5	40%	-	-	-	NULL
MAP9	79884	genome.wustl.edu	37	4	156269031	156269031	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039580.1	-1	validated	p.I616	1.000	55	0%	48	18.8%	1	0%	-	-	-	NULL
RXFP1	59350	genome.wustl.edu	37	4	159569721	159569721	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021634.2	+1	provisional	p.S609	0.691	169	0%	78	10.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PALLD	23022	genome.wustl.edu	37	4	169842851	169842851	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016081.3	+1	reviewed	p.R989Q	1.000	280	0%	159	15.1%	43	18.6%	possibly_damaging(0.927)	deleterious(0.01)	deleterious(0.780)	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
FAT1	2195	genome.wustl.edu	37	4	187629443	187629443	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.D513E	1.000	184	0%	128	15.6%	1	100%	benign(0.151)	deleterious(0.01)	neutral(0.419)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
SDHA	6389	genome.wustl.edu	37	5	251543	251543	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004168.2	+1	reviewed	p.R585Q	1.000	25	0%	27	33.3%	245	51%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Succ_DH_flav_C,superfamily_Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain
LPCAT1	79888	genome.wustl.edu	37	5	1474752	1474752	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024830.3	-1	validated	p.L316	1.000	26	0%	20	65%	58	46.5%	-	-	-	superfamily_SSF69593
ADAMTS16	170690	genome.wustl.edu	37	5	5262858	5262858	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139056.2	+1	reviewed	p.T917	0.843	169	0%	101	43.6%	3	0%	-	-	-	HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
KIAA0947	23379	genome.wustl.edu	37	5	5436543	5436543	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015325.1	+1	validated	p.Y33D	1.000	67	0%	42	23.8%	0	-	probably_damaging(0.996)	deleterious(0.04)	deleterious(0.810)	NULL
KIAA0947	23379	genome.wustl.edu	37	5	5461621	5461621	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015325.1	+1	validated	p.Y725C	0.000	139	0.7%	85	12.9%	0	-	benign(0)	tolerated(0.19)	neutral(0.050)	NULL
MYO10	4651	genome.wustl.edu	37	5	16682114	16682114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012334.2	-1	validated	p.S1352L	0.979	253	0%	103	16.5%	91	39.5%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	superfamily_SSF50729
CDH12	1010	genome.wustl.edu	37	5	21752162	21752162	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004061.3	-1	reviewed	p.R690H	1.000	334	0%	199	49.2%	1	0%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	HMMPfam_Cadherin_C
CDH10	1008	genome.wustl.edu	37	5	24487997	24487997	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006727.2	-1	reviewed	p.I714	0.952	404	0%	258	17.4%	0	-	-	-	-	HMMPfam_Cadherin_C
CDH9	1007	genome.wustl.edu	37	5	26881368	26881368	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016279.3	-1	reviewed	p.S749	0.013	419	0%	310	40.6%	0	-	-	-	-	HMMPfam_Cadherin_C
TARS	6897	genome.wustl.edu	37	5	33462278	33462278	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152295.3	+1	reviewed	p.A602V	1.000	308	0%	189	11.1%	98	6.1%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	superfamily_Class II aaRS and biotin synthetases
EGFLAM	133584	genome.wustl.edu	37	5	38463079	38463079	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152403.2	+1	validated	p.M947I	1.000	112	0%	47	14.9%	1	0%	possibly_damaging(0.496)	tolerated(0.15)	neutral(0.406)	HMMSmart_LamG,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_2
CARD6	84674	genome.wustl.edu	37	5	40853549	40853549	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032587.3	+1	reviewed	p.P705	0.000	943	0.1%	470	20.9%	0	-	-	-	-	NULL
HEATR7B2	133558	genome.wustl.edu	37	5	41019110	41019110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173489.4	-1	validated	p.P818S	0.999	153	0%	94	19.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_ARM repeat
PARP8	79668	genome.wustl.edu	37	5	50137809	50137809	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024615.3	+1	validated	p.D824	1.000	342	0.9%	195	39%	16	50%	-	-	-	superfamily_ADP-ribosylation
GZMK	3003	genome.wustl.edu	37	5	54329739	54329739	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002104.2	+1	reviewed	p.P260	0.011	342	0%	141	41.1%	1	0%	-	-	-	NULL
IL6ST	3572	genome.wustl.edu	37	5	55265400	55265400	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002184.2	-1	reviewed	p.Y116*	1.000	239	0%	128	21.1%	0	-	-	-	-	superfamily_Fibronectin type III
MIER3	166968	genome.wustl.edu	37	5	56224613	56224613	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152622.3	-1	validated	p.H301R	1.000	286	0%	174	10.9%	4	25%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SANT,superfamily_Homeodomain_like,HMMPfam_Myb_DNA-binding
PLK2	10769	genome.wustl.edu	37	5	57751414	57751414	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006622.2	-1	validated	p.G526D	1.000	126	0%	60	15%	16	18.7%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_POLO_box,superfamily_SSF82615
DEPDC1B	55789	genome.wustl.edu	37	5	59941338	59941338	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018369.2	-1	validated	p.K187Q	1.000	159	0%	100	42%	0	-	probably_damaging(0.997)	tolerated(0.15)	deleterious(0.707)	NULL
TNPO1	3842	genome.wustl.edu	37	5	72189510	72189510	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002270.3	+1	reviewed	p.Q708R	1.000	345	0%	205	23.9%	25	36%	benign(0.025)	tolerated(0.51)	neutral(0.010)	superfamily_ARM repeat
HEXB	3074	genome.wustl.edu	37	5	74012460	74012460	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503312	+1	known	p.H3Y	0.000	230	0%	160	11.9%	22	0%	-	-	-	HMMPfam_Glyco_hydro_20,superfamily_(Trans)glycosidases
MSH3	4437	genome.wustl.edu	37	5	80040410	80040410	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002439.3	+1	reviewed	p.V580A	1.000	98	0%	60	21.7%	3	0%	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	HMMPfam_MutS_III,HMMSmart_SM00533,superfamily_DNA repair protein MutS domain III
APC	324	genome.wustl.edu	37	5	112162825	112162825	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.E477*	1.000	234	0.4%	119	13.4%	2	0%	-	-	-	HMMSmart_SM00185,superfamily_ARM repeat
APC	324	genome.wustl.edu	37	5	112179274	112179274	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.I2661	0.997	447	0%	259	42.1%	5	80%	-	-	-	NULL
CSNK1G3	1456	genome.wustl.edu	37	5	122911444	122911444	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001044723.1	+1	validated	p.H154N	1.000	421	0%	209	43.1%	4	25%	possibly_damaging(0.895)	deleterious(0)	deleterious(0.797)	superfamily_Kinase_like,HMMPfam_Pkinase
EGR1	1958	genome.wustl.edu	37	5	137803620	137803620	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001964.2	+1	reviewed	p.S494	0.266	40	0%	35	42.9%	663	44.3%	-	-	-	NULL
HARS2	23438	genome.wustl.edu	37	5	140076881	140076881	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012208.2	+1	reviewed	p.R363C	0.996	110	0%	67	46.3%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF55681
PCDHA3	56145	genome.wustl.edu	37	5	140182271	140182271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018906.2	+1	reviewed	p.R497W	0.415	39	0%	24	66.7%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA4	56144	genome.wustl.edu	37	5	140187153	140187153	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018907.2	+1	reviewed	p.N127	0.624	139	0%	59	13.6%	0	-	-	-	-	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHA11	56138	genome.wustl.edu	37	5	140250588	140250588	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018902.3	+1	reviewed	p.R634C	0.927	18	0.000	9	0.556	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHAC2	56134	genome.wustl.edu	37	5	140346798	140346798	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018899.5	+1	reviewed	p.P149	0.994	17	0%	15	46.7%	0	-	-	-	-	superfamily_Cadherin-like
PCDHB5	26167	genome.wustl.edu	37	5	140515730	140515730	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015669.2	+1	reviewed	p.N238	0.070	769	0%	302	37.4%	0	-	-	-	-	HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin
PCDHB12	56124	genome.wustl.edu	37	5	140588596	140588596	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018932.3	+1	reviewed	p.L39	0.930	174	0%	92	35.9%	0	-	-	-	-	HMMPfam_Cadherin_2,superfamily_Cadherin
PCDHGA2	56113	genome.wustl.edu	37	5	140719021	140719021	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018915.2	+1	reviewed	p.D161	0.020	359	0%	167	21.6%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA3	56112	genome.wustl.edu	37	5	140724535	140724535	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018916.3	+1	reviewed	p.A312V	0.000	271	0%	130	13.8%	0	-	benign(0.005)	tolerated(0.27)	neutral(0.034)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGB1	56104	genome.wustl.edu	37	5	140729957	140729957	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018922.2	+1	reviewed	p.R44W	0.000	70	0%	35	48.6%	0	-	benign(0.002)	deleterious(0.02)	neutral(0.383)	HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHGA8	9708	genome.wustl.edu	37	5	140774691	140774691	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032088.1	+1	reviewed	p.P771S	0.487	95	0%	59	33.9%	0	-	possibly_damaging(0.438)	tolerated(0.55)	neutral(0.150)	NULL
PCDHGA10	56106	genome.wustl.edu	37	5	140793920	140793920	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018913.2	+1	reviewed	p.Y393C	0.011	88	0%	37	29.7%	0	-	benign(0.002)	deleterious(0.01)	neutral(0.406)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA10	56106	genome.wustl.edu	37	5	140794360	140794360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018913.2	+1	reviewed	p.D540N	1.000	144	0%	67	41.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA11	56105	genome.wustl.edu	37	5	140802617	140802617	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018914.2	+1	reviewed	p.R608H	0.970	94	0%	44	11.4%	0	-	benign(0.022)	tolerated(1)	neutral(0.001)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA11	56105	genome.wustl.edu	37	5	140803165	140803165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018914.2	+1	reviewed	p.P791S	0.362	100	0%	39	10.3%	0	-	benign(0.012)	tolerated(0.42)	neutral(0.015)	NULL
PLAC8L1	153770	genome.wustl.edu	37	5	145465116	145465116	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029869.1	-1	provisional	p.A101T	1.000	246	0%	120	42.5%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_PLAC8
SPINK5	11005	genome.wustl.edu	37	5	147513405	147513405	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127698.1	+1	reviewed	p.E1077D	0.972	154	0%	76	36.8%	1	100%	possibly_damaging(0.822)	tolerated(0.06)	deleterious(0.633)	NULL
SH3TC2	79628	genome.wustl.edu	37	5	148392190	148392190	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024577.3	-1	reviewed	p.H1054R	0.998	120	0%	46	15.2%	0	-	benign(0.296)	deleterious(0.01)	deleterious(0.497)	HMMSmart_SM00028,superfamily_TPR-like
CSNK1A1	1452	genome.wustl.edu	37	5	148929646	148929646	+	Silent	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025105.1	-1	validated	p.P74	0.991	89	0%	44	13.6%	105	7.6%	-	-	-	superfamily_Kinase_like,HMMPfam_Pkinase
NDST1	3340	genome.wustl.edu	37	5	149907773	149907773	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001543.4	+1	validated	p.S307	0.010	72	0%	38	10.5%	34	29.4%	-	-	-	NULL
LSM11	134353	genome.wustl.edu	37	5	157178418	157178418	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173491.2	+1	provisional	p.G157C	1.000	162	0%	127	15%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Sm_like_riboprot
RNF145	153830	genome.wustl.edu	37	5	158630642	158630642	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144726.1	-1	provisional	p.K23R	0.000	239	1.7%	176	25.6%	0	-	unknown(0)	-	-	NULL
UBLCP1	134510	genome.wustl.edu	37	5	158705322	158705322	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145049.3	+1	validated	p.I254T	1.000	324	0%	164	17.7%	15	40%	possibly_damaging(0.917)	deleterious(0)	deleterious(0.812)	HMMPfam_NIF,HMMSmart_SM00577,superfamily_HAD-like
CPEB4	80315	genome.wustl.edu	37	5	173380158	173380158	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030627.2	+1	validated	p.D615	1.000	563	0%	320	14.1%	8	0%	-	-	-	HMMSmart_SM00360,superfamily_RNA-binding domain RBD
NSD1	64324	genome.wustl.edu	37	5	176675305	176675305	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022455.4	+1	reviewed	p.L1541V	0.958	70	0%	31	48.4%	9	44.4%	benign(0.18)	deleterious(0)	neutral(0.461)	superfamily_FYVE/PHD zinc finger
PROP1	5626	genome.wustl.edu	37	5	177421189	177421189	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006261.4	-1	reviewed	p.A87V	1.000	316	0%	130	14.6%	0	-	probably_damaging(0.999)	tolerated(0.19)	deleterious(0.540)	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
GRM6	2916	genome.wustl.edu	37	5	178418889	178418889	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000843.3	-1	reviewed	p.V234I	1.000	17	0%	11	72.7%	0	-	benign(0.002)	tolerated(0.27)	neutral(0.034)	HMMPfam_ANF_receptor,superfamily_SSF53822
CNOT6	57472	genome.wustl.edu	37	5	179992862	179992862	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015455.3	+1	reviewed	p.Y201C	1.000	238	0%	148	12.2%	8	0%	probably_damaging(0.995)	deleterious(0.04)	deleterious(0.806)	HMMPfam_Exo_endo_phos,superfamily_DNase I-like
ATXN1	6310	genome.wustl.edu	37	6	16326668	16326668	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000332.3	-1	reviewed	p.G625D	0.997	75	0%	25	64%	7	14.2%	possibly_damaging(0.927)	tolerated(0.27)	neutral(0.408)	HMMSmart_SM00536,HMMPfam_AXH,superfamily_AXH domain
ATXN1	6310	genome.wustl.edu	37	6	16327540	16327540	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000332.3	-1	reviewed	p.Y334	0.878	51	0%	21	19%	4	0%	-	-	-	NULL
SLC17A1	6568	genome.wustl.edu	37	6	25813067	25813067	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005074.3	-1	validated	p.I297V	0.000	346	0%	178	20.2%	0	-	benign(0.007)	tolerated(0.37)	neutral(0.019)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC17A3	10786	genome.wustl.edu	37	6	25861869	25861869	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098486.1	-1	validated	p.C203Y	0.200	227	0%	168	13.7%	0	-	benign(0.382)	deleterious(0.03)	deleterious(0.486)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
HIST1H4I	8294	genome.wustl.edu	37	6	27107346	27107346	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003495.2	+1	reviewed	p.V87M	1.000	121	0%	40	15%	1	0%	probably_damaging(0.954)	deleterious(0)	deleterious(0.842)	HMMSmart_SM00417,HMMSmart_SM00803,HMMPfam_Histone,superfamily_Histone-fold
ZFP57	346171	genome.wustl.edu	37	6	29640791	29640791	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109809.2	-1	reviewed	p.C346Y	0.032	508	0%	263	45.6%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
PRRC2A	7916	genome.wustl.edu	37	6	31600349	31600349	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080686.2	+1	reviewed	p.R1300H	0.999	142	0%	60	11.7%	116	2.5%	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	NULL
BRPF3	27154	genome.wustl.edu	37	6	36168897	36168897	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441123	+1	known	p.C239R	0.972	91	0%	56	32.1%	10	60%	-	-	-	superfamily_FYVE/PHD zinc finger
MOCS1	4337	genome.wustl.edu	37	6	39880704	39880704	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001075098.3	-1	reviewed	p.L268	1.000	522	0%	241	45.6%	1	100%	-	-	-	HMMSmart_Elp3,HMMPfam_Mob_synth_C,superfamily_SSF102114
LRFN2	57497	genome.wustl.edu	37	6	40360308	40360308	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020737.1	-1	provisional	p.A582T	0.664	26	0.000	7	0.571	0	-	benign(0.005)	tolerated(0.21)	neutral(0.044)	NULL
UBR2	23304	genome.wustl.edu	37	6	42646397	42646397	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015255.2	+1	reviewed	p.P1533	0.506	274	0%	132	37.1%	25	44%	-	-	-	NULL
CUL9	23113	genome.wustl.edu	37	6	43183939	43183940	+	Frame_Shift_Ins	INS	-	-	TC	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015089.2	+1	validated	p.G1994fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
SLC22A7	10864	genome.wustl.edu	37	6	43267141	43267141	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153320.2	+1	reviewed	p.C138Y	1.000	65	0%	33	24.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CYP39A1	51302	genome.wustl.edu	37	6	46604150	46604150	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016593.3	-1	reviewed	p.C236	0.000	222	0%	129	11.6%	3	0%	-	-	-	superfamily_Cytochrome P450
CRISP1	167	genome.wustl.edu	37	6	49819776	49819776	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131.2	-1	reviewed	p.V45I	0.000	513	0%	330	11.8%	0	-	possibly_damaging(0.583)	tolerated(0.21)	neutral(0.244)	HMMSmart_SM00198,HMMPfam_SCP,superfamily_PR-1-like
DST	667	genome.wustl.edu	37	6	56352050	56352050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.A4344T	1.000	93	0%	49	32.7%	0	-	benign(0.256)	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
LMBRD1	55788	genome.wustl.edu	37	6	70423548	70423548	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018368.3	-1	reviewed	p.R302C	0.981	428	0%	306	23.9%	7	42.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_LMBR1
FAM135A	57579	genome.wustl.edu	37	6	71186981	71186981	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105531.2	+1	validated	p.V163A	1.000	169	0%	98	17.3%	3	0%	probably_damaging(0.987)	tolerated(0.5)	neutral(0.447)	NULL
C6orf57	135154	genome.wustl.edu	37	6	71298420	71298420	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145267.2	+1	validated	p.D107G	1.000	308	0%	150	10.7%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF1674
EEF1A1	1915	genome.wustl.edu	37	6	74227986	74227986	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001402.5	-1	reviewed	p.V344A	1.000	89	0%	104	8.7%	7767	8.2%	benign(0.02)	deleterious(0.03)	neutral(0.365)	HMMPfam_GTP_EFTU_D3,superfamily_EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
SNX14	57231	genome.wustl.edu	37	6	86252946	86252946	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153816.3	-1	reviewed	p.S448F	1.000	348	0%	119	16.8%	11	9%	possibly_damaging(0.941)	deleterious(0.03)	deleterious(0.751)	HMMPfam_RGS,HMMSmart_SM00315,superfamily_Regulator of G-protein signaling RGS
HTR1E	3354	genome.wustl.edu	37	6	87725488	87725488	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000865.2	+1	validated	p.V146I	0.996	218	0%	185	48.6%	0	-	probably_damaging(0.982)	deleterious(0.02)	deleterious(0.809)	HMMPfam_7tm_1,superfamily_SSF81321
GJB7	375519	genome.wustl.edu	37	6	87994603	87994603	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198568.2	-1	validated	p.L10M	1.000	545	0%	375	42.1%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_Connexin
RNGTT	8732	genome.wustl.edu	37	6	89324012	89324012	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003800.3	-1	validated	p.N537D	1.000	268	0%	178	24.7%	3	66.6%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_mRNA_cap_C,superfamily_Nucleic acid-binding proteins
MDN1	23195	genome.wustl.edu	37	6	90513155	90513155	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.E74G	1.000	406	0%	154	20.1%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
ASCC3	10973	genome.wustl.edu	37	6	101091990	101091990	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006828.2	-1	validated	p.G1217*	1.000	231	0.4%	112	9.8%	7	0%	-	-	-	HMMPfam_Sec63,HMMSmart_SEC63,superfamily_SSF52540
QRSL1	55278	genome.wustl.edu	37	6	107097074	107097074	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018292.4	+1	validated	p.Y185	1.000	108	0%	73	16.4%	19	21%	-	-	-	HMMPfam_Amidase,superfamily_Amidase signature (AS) enzymes
CDC40	51362	genome.wustl.edu	37	6	110534295	110534295	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015891.2	+1	reviewed	p.S292G	1.000	259	0%	110	41.8%	5	60%	possibly_damaging(0.659)	deleterious(0)	deleterious(0.677)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
HDAC2	3066	genome.wustl.edu	37	6	114267270	114267270	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001527.3	-1	reviewed	p.P389L	1.000	337	0%	171	40.9%	166	39.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hist_deacetyl,superfamily_SSF52768
HSF2	3298	genome.wustl.edu	37	6	122740369	122740369	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004506.3	+1	validated	p.R196	0.999	191	0%	117	19.7%	4	0%	-	-	-	HMMPfam_HSF_DNA-bind
TMEM200A	114801	genome.wustl.edu	37	6	130762892	130762892	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052913.2	+1	provisional	p.R442M	1.000	712	0.1%	481	41.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MED23	9439	genome.wustl.edu	37	6	131924291	131924292	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	GT	GT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004830.2	-1	reviewed	p.L604fs	1.000:0.915	-	-	-	-	-	-	-	-	-	NULL
ENPP1	5167	genome.wustl.edu	37	6	132203595	132203595	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006208.2	+1	reviewed	p.Y737	1.000	447	0%	226	46.5%	1	100%	-	-	-	HMMSmart_NUC,superfamily_SSF54060
TBPL1	9519	genome.wustl.edu	37	6	134305717	134305717	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004865.2	+1	reviewed	p.Y130S	1.000	223	0%	140	15%	31	25.8%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_TBP,superfamily_TATA-box binding protein-like
SGK1	6446	genome.wustl.edu	37	6	134495144	134495146	+	In_Frame_Del	DEL	GGA	GGA	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	GGA	GGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143676.1	-1	reviewed	p.P172in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	superfamily_Kinase_like
ARID1B	57492	genome.wustl.edu	37	6	157528311	157528311	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017519.2	+1	validated	p.W1994*	1.000	179	0%	97	45.4%	72	66.6%	-	-	-	NULL
ARID1B	57492	genome.wustl.edu	37	6	157528935	157528935	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017519.2	+1	validated	p.G2202	0.785	234	0.9%	136	17.6%	33	30.3%	-	-	-	NULL
FNDC1	84624	genome.wustl.edu	37	6	159654714	159654714	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032532.2	+1	validated	p.T1057M	0.000	1	0.000	4	1.000	2	0%	unknown(0)	deleterious(0)	-	NULL
IGF2R	3482	genome.wustl.edu	37	6	160471629	160471629	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000876.2	+1	reviewed	p.G880D	0.005	92	0%	56	26.8%	22	45.4%	probably_damaging(0.966)	tolerated(0.07)	deleterious(0.727)	superfamily_Mannose 6-phosphate receptor domain
RSPH10B	222967	genome.wustl.edu	37	7	5983092	5983092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173565.3	-1	validated	p.R541C	0.864	268	7.8%	151	21.2%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CYTH3	9265	genome.wustl.edu	37	7	6205175	6205175	+	Splice_Site	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004227.3	-1	reviewed	e11+1	1.000	36	0%	50	54%	0	-	-	-	-	-
THSD7A	221981	genome.wustl.edu	37	7	11509564	11509564	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015204.2	-1	validated	p.K770	0.999	36	0%	26	23.1%	0	-	-	-	-	superfamily_TSP-1 type 1 repeat
C7orf31	136895	genome.wustl.edu	37	7	25175697	25175697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138811.3	-1	validated	p.R556H	0.263	418	0%	251	43.8%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
BMPER	168667	genome.wustl.edu	37	7	34118717	34118717	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133468.3	+1	validated	p.S443P	1.000	135	0%	47	21.3%	0	-	benign(0.027)	tolerated(0.1)	neutral(0.288)	HMMPfam_VWD,HMMSmart_VWD
TBX20	57057	genome.wustl.edu	37	7	35280611	35280611	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077653.2	-1	reviewed	p.V231	0.806	170	0%	103	32%	4	100%	-	-	-	HMMPfam_T-box,HMMSmart_TBOX,superfamily_P53_like_DNA_bnd
ELMO1	9844	genome.wustl.edu	37	7	37298864	37298864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014800.9	-1	reviewed	p.R112Q	1.000	189	0%	112	45.5%	0	-	benign(0.051)	tolerated(0.44)	neutral(0.015)	superfamily_ARM repeat
GCK	2645	genome.wustl.edu	37	7	44186069	44186069	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033507.1	-1	reviewed	p.V339L	0.999	11	0%	10	60%	0	-	benign(0.02)	deleterious(0)	neutral(0.446)	HMMPfam_Hexokinase_2,superfamily_SSF53067
ABCA13	154664	genome.wustl.edu	37	7	48392020	48392020	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152701.3	+1	reviewed	p.Q3542K	0.014	45	0%	41	29.3%	0	-	benign(0.001)	-	-	NULL
ZNF716	441234	genome.wustl.edu	37	7	57522780	57522780	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342727.1	+1	model	p.G56	0.376	699	0.1%	339	12.4%	0	-	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
RSBN1L	222194	genome.wustl.edu	37	7	77394895	77394897	+	In_Frame_Del	DEL	AGG	AGG	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	AGG	AGG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198467.2	+1	validated	p.G477in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
SEMA3A	10371	genome.wustl.edu	37	7	83590796	83590796	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006080.2	-1	reviewed	p.R736M	1.000	465	0%	223	14.3%	0	-	benign(0.296)	deleterious(0.03)	neutral(0.456)	NULL
DBF4	10926	genome.wustl.edu	37	7	87530115	87530115	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006716.3	+1	validated	p.S282	0.073	454	0%	203	20.2%	11	45.4%	-	-	-	NULL
STEAP4	79689	genome.wustl.edu	37	7	87913221	87913222	+	Frame_Shift_Ins	INS	-	-	A	rs34741656	byCluster;byFrequency;by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024636.2	-1	validated	p.A121fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_F420_oxidored,superfamily_NAD(P)-binding Rossmann-fold domains
SAMD9	54809	genome.wustl.edu	37	7	92732247	92732247	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017654.2	-1	validated	p.I1055S	1.000	324	0.3%	180	21.1%	0	-	possibly_damaging(0.85)	deleterious(0)	deleterious(0.772)	NULL
SLC25A13	10165	genome.wustl.edu	37	7	95750540	95750540	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014251.2	-1	reviewed	p.S664L	0.498	340	0%	209	15.3%	24	4.1%	benign(0.123)	deleterious(0.03)	neutral(0.374)	NULL
PTCD1	26024	genome.wustl.edu	37	7	99022470	99022470	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015545.2	-1	validated	p.A562V	1.000	26	0%	23	21.7%	30	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
COPS6	10980	genome.wustl.edu	37	7	99689080	99689080	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006833.4	+1	reviewed	p.A260	0.998	211	0%	124	51.6%	298	42.9%	-	-	-	NULL
POP7	10248	genome.wustl.edu	37	7	100304571	100304571	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005837.2	+1	validated	p.N40D	1.000	32	3.1%	29	37.9%	131	55.7%	probably_damaging(0.979)	tolerated(0.09)	deleterious(0.718)	HMMPfam_Alba,superfamily_AlbA-like
ZAN	7455	genome.wustl.edu	37	7	100365535	100365535	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003386.1	+1	reviewed	p.L1648I	0.904	46	0%	18	33.3%	0	-	probably_damaging(0.999)	tolerated(0.22)	deleterious(0.532)	HMMPfam_VWD,HMMSmart_SM00216
SRRT	51593	genome.wustl.edu	37	7	100484762	100484762	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015908.5	+1	validated	p.R639H	0.999	212	0%	146	45.9%	147	76.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ARS2
NAPEPLD	222236	genome.wustl.edu	37	7	102769021	102769021	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122838.1	-1	validated	p.P68L	1.000	440	0%	263	11.8%	1	0%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
PNPLA8	50640	genome.wustl.edu	37	7	108154650	108154650	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015723.2	-1	provisional	p.R382G	1.000	1306	0.1%	778	14.8%	2	50%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_ARM repeat
FEZF1	389549	genome.wustl.edu	37	7	121942098	121942098	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024613.2	-1	validated	p.P457S	0.951	9	0.000	10	0.400	0	-	unknown(0)	deleterious(0)	-	NULL
SND1	27044	genome.wustl.edu	37	7	127721425	127721425	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014390.2	+1	validated	p.Y661C	1.000	21	0.000	9	0.444	869	49.9%	possibly_damaging(0.867)	deleterious(0)	deleterious(0.781)	superfamily_Staphylococal_nuclease_OB-fold
OPN1SW	611	genome.wustl.edu	37	7	128415649	128415649	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001708.2	-1	reviewed	p.R66W	1.000	270	0%	160	41.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MGAM	8972	genome.wustl.edu	37	7	141755853	141755853	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004668.2	+1	reviewed	p.D1179	0.793	53	0%	19	21.1%	0	-	-	-	-	NULL
TRBV7-8	28590	genome.wustl.edu	37	7	142099665	142099665	+	Missense_Mutation	SNP	G	G	A	rs192558388	by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390359	-1	known	p.S46L	0.025	276	0%	151	46.4%	1	0%	benign(0.294)	tolerated(0.07)	neutral(0.410)	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
RHEB	6009	genome.wustl.edu	37	7	151188050	151188050	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005614.3	-1	reviewed	p.Y35N	1.000	350	0.3%	167	19.8%	58	32.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_RAS,HMMPfam_Ras,superfamily_SSF52540
ERICH1	157697	genome.wustl.edu	37	8	623487	623487	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207332.1	-1	provisional	p.D289N	0.016	75	0%	64	28.1%	19	0%	possibly_damaging(0.93)	deleterious(0.01)	deleterious(0.782)	NULL
FGL1	2267	genome.wustl.edu	37	8	17726161	17726161	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004467.3	-1	reviewed	p.W225*	1.000	447	0%	206	41.3%	1	0%	-	-	-	HMMPfam_Fibrinogen_C,HMMSmart_FBG,superfamily_Fibrinogen_a/b/g_C
CSGALNACT1	55790	genome.wustl.edu	37	8	19363035	19363035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130518.1	-1	validated	p.A104V	0.020	78	0%	55	29.1%	1	100%	benign(0)	tolerated(0.38)	neutral(0.018)	HMMPfam_CHGN
NEFM	4741	genome.wustl.edu	37	8	24772112	24772112	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005382.2	+1	reviewed	p.A269V	1.000	45	0%	28	53.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Filament
IDO1	3620	genome.wustl.edu	37	8	39776355	39776355	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002164.4	+1	validated	p.V109F	0.461	320	0%	140	44.3%	4	25%	possibly_damaging(0.931)	deleterious(0.01)	deleterious(0.783)	HMMPfam_IDO
RB1CC1	9821	genome.wustl.edu	37	8	53536366	53536366	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014781.4	-1	reviewed	p.A1587	0.997	131	0%	70	11.4%	4	25%	-	-	-	HMMPfam_ATG11
LYN	4067	genome.wustl.edu	37	8	56879367	56879367	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002350.2	+1	validated	p.K295R	1.000	206	0%	147	20.4%	40	17.5%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
LACTB2	51110	genome.wustl.edu	37	8	71556476	71556476	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016027.2	-1	validated	p.V139A	1.000	668	0%	383	14.9%	16	18.7%	benign(0.005)	tolerated(0.4)	neutral(0.016)	HMMPfam_Lactamase_B,superfamily_SSF56281
JPH1	56704	genome.wustl.edu	37	8	75157170	75157170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020647.2	-1	reviewed	p.S500N	0.462	257	0%	164	47.6%	3	100%	benign(0)	tolerated(0.5)	neutral(0.010)	NULL
HNF4G	3174	genome.wustl.edu	37	8	76472655	76472655	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004133.4	+1	validated	p.T390	0.994	151	0%	99	13.1%	7	0%	-	-	-	NULL
WWP1	11059	genome.wustl.edu	37	8	87423953	87423957	+	Frame_Shift_Del	DEL	AATCT	AATCT	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	AATCT	AATCT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007013.3	+1	validated	p.E304fs	0.000:0.000:0.001:0.156:0.175	-	-	-	-	-	-	-	-	-	NULL
RIPK2	8767	genome.wustl.edu	37	8	90782098	90782098	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003821.5	+1	reviewed	p.P194	1.000	490	0%	287	11.8%	23	8.6%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
PDP1	54704	genome.wustl.edu	37	8	94934363	94934363	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018444.3	+1	reviewed	p.Y26H	1.000	122	0%	93	14%	20	0%	possibly_damaging(0.745)	deleterious(0)	deleterious(0.718)	NULL
CCNE2	9134	genome.wustl.edu	37	8	95905056	95905056	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057749.1	-1	reviewed	p.P103S	1.000	64	0%	73	9.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Cyclin-like
VPS13B	157680	genome.wustl.edu	37	8	100403934	100403934	+	Splice_Site	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017890.3	+1	reviewed	e20+2	1.000	115	0%	93	15.1%	0	-	-	-	-	-
LRP12	29967	genome.wustl.edu	37	8	105509713	105509713	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013437.4	-1	reviewed	p.A356D	1.000	219	0%	114	11.4%	3	0%	probably_damaging(0.999)	tolerated(0.13)	deleterious(0.743)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
OXR1	55074	genome.wustl.edu	37	8	107704962	107704962	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018002.2	+1	validated	p.D178Y	1.000	151	0%	86	14%	12	16.6%	probably_damaging(0.956)	deleterious(0.02)	deleterious(0.782)	NULL
PKHD1L1	93035	genome.wustl.edu	37	8	110439305	110439305	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.V974L	0.989	121	0%	47	23.4%	0	-	benign(0.424)	deleterious(0)	deleterious(0.582)	NULL
TAF2	6873	genome.wustl.edu	37	8	120807788	120807788	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003184.3	-1	reviewed	p.R392H	1.000	412	0.2%	177	33.3%	1	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_Peptidase_M1,superfamily_SSF55486
EFR3A	23167	genome.wustl.edu	37	8	132982722	132982722	+	Splice_Site	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015137.3	+1	validated	e10-1	1.000	160	0%	97	14.4%	0	-	-	-	-	-
KCNQ3	3786	genome.wustl.edu	37	8	133142021	133142021	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004519.2	-1	reviewed	p.T703A	1.000	149	0%	80	58.8%	0	-	benign(0)	tolerated(0.74)	neutral(0.002)	NULL
ZFAT	57623	genome.wustl.edu	37	8	135621096	135621096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020863.3	-1	reviewed	p.A221T	1.000	165	0%	86	34.9%	1	0%	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	NULL
EIF2C2	27161	genome.wustl.edu	37	8	141542153	141542153	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000220592	-1	known	p.Y857C	1.000	101	0%	84	28.6%	36	47.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLC45A4	57210	genome.wustl.edu	37	8	142228981	142228981	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080431.1	-1	provisional	p.I202S	1.000	19	0%	14	57.1%	16	37.5%	possibly_damaging(0.837)	deleterious(0.01)	deleterious(0.725)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
RLN2	6019	genome.wustl.edu	37	9	5304456	5304456	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134441.1	-1	reviewed	p.A42V	0.000	205	0%	102	57.8%	0	-	benign(0.003)	tolerated(1)	-	HMMPfam_Insulin,HMMSmart_SM00078,superfamily_Insulin-like
KIAA2026	158358	genome.wustl.edu	37	9	5921251	5921251	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017969.2	-1	validated	p.A1582V	1.000	506	0.4%	303	49.8%	2	50%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
LOC402360	402360	genome.wustl.edu	37	9	23681934	23681934	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342894.1	+1	model	p.H14N	1.000	43	2.3%	23	39.1%	0	-	-	-	-	HMMPfam_Nop,superfamily_Nop domain
NFX1	4799	genome.wustl.edu	37	9	33319099	33319099	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002504.3	+1	reviewed	p.G627D	1.000	147	0%	85	47.1%	11	72.7%	probably_damaging(0.96)	tolerated(0.23)	neutral(0.445)	NULL
RECK	8434	genome.wustl.edu	37	9	36091312	36091315	+	Frame_Shift_Del	DEL	CTTA	CTTA	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	CTTA	CTTA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021111.2	+1	reviewed	p.Y355fs	1.000:1.000:0.999:1.000	-	-	-	-	-	-	-	-	-	NULL
RECK	8434	genome.wustl.edu	37	9	36121587	36121587	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021111.2	+1	reviewed	p.V866M	1.000	264	0.8%	195	50.8%	0	-	possibly_damaging(0.631)	deleterious(0.01)	deleterious(0.626)	NULL
FBXO10	26267	genome.wustl.edu	37	9	37521677	37521677	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012166.2	-1	validated	p.E697K	1.000	109	0%	54	25.9%	2	50%	benign(0.073)	tolerated(0.06)	neutral(0.328)	HMMSmart_CASH
TLE1	7088	genome.wustl.edu	37	9	84248275	84248278	+	Frame_Shift_Del	DEL	TCTG	TCTG	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	TCTG	TCTG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005077.3	-1	provisional	p.D193fs	1.000:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
AGTPBP1	23287	genome.wustl.edu	37	9	88247924	88247926	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	CTT	CTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015239.2	-1	validated	p.K516in_frame_del	0.989:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
FAM120A	23196	genome.wustl.edu	37	9	96278459	96278459	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446420	+1	known	p.A285V	0.991	107	0.9%	46	45.7%	102	47%	-	-	-	NULL
FAM22G	441457	genome.wustl.edu	37	9	99699454	99699454	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001045477.2	+1	validated	p.P364L	0.001	55	0%	26	42.3%	0	-	benign(0)	tolerated(0.18)	neutral(0.056)	NULL
NANS	54187	genome.wustl.edu	37	9	100839300	100839303	+	Splice_Site	DEL	GTAA	GTAA	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	GTAA	GTAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018946.3	+1	reviewed	e3+1	1.000:0.999	-	-	-	-	-	-	-	-	-	-
ASTN2	23245	genome.wustl.edu	37	9	119204743	119204743	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198187.3	-1	reviewed	p.N1196S	1.000	279	0%	123	57.7%	28	17.8%	benign(0)	tolerated(1)	-	NULL
ASTN2	23245	genome.wustl.edu	37	9	119413833	119413833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198187.3	-1	reviewed	p.L1016F	1.000	129	0%	70	40%	6	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00457
MORN5	254956	genome.wustl.edu	37	9	124929066	124929066	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198469.2	+1	validated	p.Y23H	0.996	278	0%	134	10.4%	32	12.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MORN,HMMSmart_MORN,superfamily_SSF82185
SCAI	286205	genome.wustl.edu	37	9	127764309	127764309	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173690.4	-1	reviewed	p.N383S	1.000	465	0.2%	178	46.6%	2	0%	probably_damaging(0.989)	tolerated(0.05)	deleterious(0.785)	NULL
LMX1B	4010	genome.wustl.edu	37	9	129455844	129455844	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002316.3	+1	reviewed	p.R238	0.319	49	0%	34	23.5%	3	0%	-	-	-	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like,PatternScan_HOMEOBOX_1
GTF3C4	9329	genome.wustl.edu	37	9	135553496	135553496	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012204.2	+1	validated	p.F164I	0.971	163	0%	107	12.1%	9	33.3%	benign(0.074)	tolerated(0.39)	neutral(0.021)	NULL
COL5A1	1289	genome.wustl.edu	37	9	137716495	137716495	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000093.3	+1	reviewed	p.T1583M	1.000	60	1.7%	38	15.8%	14	0%	unknown(0)	tolerated(0.09)	-	NULL
PPP1R26	9858	genome.wustl.edu	37	9	138378118	138378118	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014811.3	+1	validated	p.P588T	0.000	21	0%	23	17.4%	5	20%	benign(0.301)	tolerated(0.13)	neutral(0.346)	NULL
KLF6	1316	genome.wustl.edu	37	10	3823798	3823799	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000469435	-1	known	p.A237fs	0.000:0.001	-	-	-	-	-	-	-	-	-	NULL
FAM188A	80013	genome.wustl.edu	37	10	15838107	15838107	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024948.2	-1	validated	p.D316G	1.000	505	0.2%	297	40.4%	3	33.3%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	superfamily_EF-hand
NSUN6	221078	genome.wustl.edu	37	10	18840887	18840887	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182543.2	-1	validated	p.F312	0.975	240	0.4%	105	28.6%	12	25%	-	-	-	HMMPfam_Nol1_Nop2_Fmu,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
ABI1	10006	genome.wustl.edu	37	10	27112187	27112187	+	Silent	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005470.3	-1	validated	p.T55	0.993	659	0%	320	44.1%	20	60%	-	-	-	NULL
SVIL	6840	genome.wustl.edu	37	10	29812666	29812666	+	Silent	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021738.2	-1	reviewed	p.R959	0.000	400	0%	202	13.9%	4	0%	-	-	-	NULL
KIAA1462	57608	genome.wustl.edu	37	10	30315945	30315945	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020848.2	-1	validated	p.S1044	0.003	389	0%	154	12.3%	0	-	-	-	-	NULL
ZNF248	57209	genome.wustl.edu	37	10	38121881	38121881	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021045.1	-1	provisional	p.N134K	0.149	460	0%	347	16.1%	0	-	benign(0.002)	tolerated(1)	-	NULL
LOC728064	728064	genome.wustl.edu	37	10	43178874	43178874	+	RNA	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_015196.2	-1	model	NULL	0.001	49	0%	13	30.8%	0	-	-	-	-	-
PCDH15	65217	genome.wustl.edu	37	10	56077053	56077053	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142763.1	-1	reviewed	p.A290V	0.533	311	0%	209	47.4%	0	-	benign(0.017)	tolerated(0.58)	neutral(0.005)	HMMPfam_Cadherin,superfamily_Cadherin-like
ANK3	288	genome.wustl.edu	37	10	61828830	61828830	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020987.2	-1	reviewed	p.Q3937*	1.000	554	0%	440	13.4%	0	-	-	-	-	NULL
ARID5B	84159	genome.wustl.edu	37	10	63759944	63759944	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032199.2	+1	validated	p.S199	0.136	327	0%	186	50.5%	5	40%	-	-	-	NULL
JMJD1C	221037	genome.wustl.edu	37	10	64967056	64967056	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032776.1	-1	validated	p.L1458*	0.169	341	0%	218	50.9%	1	0%	-	-	-	NULL
TET1	80312	genome.wustl.edu	37	10	70333859	70333859	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030625.2	+1	validated	p.R588	0.995	267	0%	120	11.7%	0	-	-	-	-	HMMPfam_zf-CXXC
H2AFY2	55506	genome.wustl.edu	37	10	71835451	71835451	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018649.2	+1	validated	p.L13	1.000	91	0%	42	38.1%	59	49.1%	-	-	-	HMMSmart_H2A,superfamily_Histone-fold
CDH23	64072	genome.wustl.edu	37	10	73572362	73572362	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022124.5	+1	reviewed	p.T3169N	1.000	38	0%	23	34.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
USP54	159195	genome.wustl.edu	37	10	75301249	75301249	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152586.3	-1	provisional	p.R237C	1.000	426	0%	226	17.3%	3	0%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	superfamily_Cysteine proteinases
AGAP5	729092	genome.wustl.edu	37	10	75451802	75451802	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144000.1	-1	validated	p.H132R	1.000	304	0%	162	22.8%	0	-	possibly_damaging(0.484)	deleterious(0)	deleterious(0.605)	NULL
KCNMA1	3778	genome.wustl.edu	37	10	78709099	78709099	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014797.2	-1	reviewed	p.V783A	1.000	264	0%	157	45.9%	13	30.7%	benign(0.045)	tolerated(0.17)	neutral(0.061)	NULL
PTEN	5728	genome.wustl.edu	37	10	89692905	89692905	+	Missense_Mutation	SNP	G	G	T	rs121913292		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.R130L	1.000	648	0%	383	92.2%	34	97%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DSPc,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1,superfamily_(Phosphotyrosine protein) phosphatases II
LIPK	643414	genome.wustl.edu	37	10	90499808	90499808	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080518.1	+1	provisional	p.M291T	1.000	279	0.7%	114	90.4%	0	-	benign(0.29)	deleterious(0.03)	neutral(0.454)	HMMPfam_Abhydrolase_1,superfamily_SSF53474
HTR7	3363	genome.wustl.edu	37	10	92502271	92502271	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019859.3	-1	reviewed	p.T470A	1.000	202	0%	105	43.8%	0	-	unknown(0)	deleterious(0)	-	NULL
CYP26C1	340665	genome.wustl.edu	37	10	94828180	94828180	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183374.2	+1	reviewed	p.R432H	1.000	6	0.000	6	0.667	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_p450,superfamily_Cytochrome_P450
ALDH18A1	5832	genome.wustl.edu	37	10	97393392	97393392	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002860.3	-1	reviewed	p.N191K	0.983	240	0%	138	14.5%	318	5.3%	benign(0.001)	tolerated(0.74)	neutral(0.002)	HMMPfam_AA_kinase,superfamily_Carbamate kinase-like
C10orf62	414157	genome.wustl.edu	37	10	99349956	99349956	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009997.2	+1	validated	p.S101Y	0.027	74	0%	56	44.6%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
SEC31B	25956	genome.wustl.edu	37	10	102249969	102249969	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015490.3	-1	reviewed	p.G921C	0.010	104	0%	70	18.6%	0	-	benign(0.236)	deleterious(0.04)	neutral(0.372)	NULL
FAM178A	55719	genome.wustl.edu	37	10	102684152	102684152	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136123.1	+1	validated	p.T465M	0.249	511	0%	246	17.9%	0	-	benign(0.07)	tolerated(0.08)	neutral(0.305)	NULL
PPRC1	23082	genome.wustl.edu	37	10	103899384	103899384	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015062.3	+1	reviewed	p.R373	0.996	188	0%	123	43.9%	16	56.2%	-	-	-	NULL
NOLC1	9221	genome.wustl.edu	37	10	103920666	103920668	+	In_Frame_Del	DEL	TTC	TTC	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	TTC	TTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004741.3	+1	validated	p.S522in_frame_del	0.238:0.344:0.376	-	-	-	-	-	-	-	-	-	NULL
SORCS1	114815	genome.wustl.edu	37	10	108431071	108431071	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013031.1	-1	reviewed	p.R705W	0.972	436	0.2%	330	17.3%	0	-	possibly_damaging(0.847)	deleterious(0.02)	deleterious(0.708)	HMMSmart_VPS10
SHOC2	8036	genome.wustl.edu	37	10	112769508	112769508	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007373.3	+1	reviewed	p.P487L	1.000	145	0%	74	18.9%	15	13.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00364,superfamily_L domain-like
PNLIPRP2	5408	genome.wustl.edu	37	10	118380845	118380847	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	CTC	CTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005396.4	+1	validated	p.L13in_frame_del	0.963:0.998:1.000	-	-	-	-	-	-	-	-	-	NULL
EIF3A	8661	genome.wustl.edu	37	10	120830448	120830448	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003750.2	-1	validated	p.E231K	1.000	153	0%	76	39.5%	55	43.6%	unknown(0)	deleterious(0.01)	-	NULL
TACC2	10579	genome.wustl.edu	37	10	124009111	124009111	+	Missense_Mutation	SNP	G	G	A	rs114931291	byCluster;by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206862.2	+1	reviewed	p.A2905T	0.999	40	0.000	9	0.556	40	57.5%	possibly_damaging(0.864)	deleterious(0)	deleterious(0.779)	HMMPfam_TACC
DOCK1	1793	genome.wustl.edu	37	10	129207609	129207609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398025	+1	known	p.D1478N	0.976	248	0%	81	40.7%	5	40%	benign(0.001)	tolerated(0.31)	neutral(0.027)	NULL
DOCK1	1793	genome.wustl.edu	37	10	129231578	129231578	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398025	+1	known	p.R1694H	0.999	440	0%	191	16.2%	20	15%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	NULL
MKI67	4288	genome.wustl.edu	37	10	129905112	129905113	+	Frame_Shift_Del	DEL	TG	TG	-	rs145960091	by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	TG	TG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002417.4	-1	reviewed	p.T1664fs	0.000:0.000	-	-	-	-	-	-	-	-	-	HMMPfam_K167R
MUC5B	727897	genome.wustl.edu	37	11	1263812	1263812	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.P1904L	0.000	134	0%	72	16.7%	445	36.6%	benign(0.014)	-	-	NULL
CARS	833	genome.wustl.edu	37	11	3063406	3063406	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014437.1	-1	reviewed	p.T119S	1.000	46	0%	31	48.4%	42	45.2%	possibly_damaging(0.861)	deleterious(0.04)	deleterious(0.682)	superfamily_SSF52374
NUP98	4928	genome.wustl.edu	37	11	3741975	3741975	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016320.4	-1	reviewed	p.C743R	1.000	292	0%	163	12.3%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Nucleoporin2,superfamily_Peptidase_S59
OR51F1	256892	genome.wustl.edu	37	11	4790536	4790536	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004752.1	-1	provisional	p.D204E	0.000	435	0%	198	11.1%	0	-	benign(0)	deleterious(0.02)	neutral(0.383)	HMMPfam_7tm_1,superfamily_SSF81321
OR51I1	390063	genome.wustl.edu	37	11	5462483	5462483	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005288.2	-1	validated	p.C88G	1.000	422	0%	258	45.7%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
UBQLNL	143630	genome.wustl.edu	37	11	5536690	5536690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145053.4	-1	validated	p.A328T	0.464	160	0%	130	18.5%	0	-	benign(0)	tolerated(1)	-	NULL
TPP1	1200	genome.wustl.edu	37	11	6637258	6637258	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000391.3	-1	reviewed	p.R375C	1.000	49	0%	47	48.9%	116	42.2%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	superfamily_Subtilisin-like
OR2D2	120776	genome.wustl.edu	37	11	6913686	6913686	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003700.1	-1	provisional	p.G16*	0.997	517	0%	309	11.7%	0	-	-	-	-	superfamily_SSF81321
ZNF214	7761	genome.wustl.edu	37	11	7022739	7022739	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013249.2	-1	validated	p.L59I	0.640	527	0%	361	12.2%	0	-	probably_damaging(0.969)	tolerated(0.27)	neutral(0.445)	NULL
TUB	7275	genome.wustl.edu	37	11	8118899	8118899	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003320.4	+1	reviewed	p.R326Q	0.998	207	0%	78	23.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Tub,superfamily_Tubby_C
SCUBE2	57758	genome.wustl.edu	37	11	9051481	9051481	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020974.2	-1	validated	p.G789V	1.000	255	0%	133	13.5%	0	-	probably_damaging(0.999)	tolerated(0.22)	deleterious(0.532)	superfamily_Growth factor receptor domain,HMMPfam_GCC2_GCC3
USP47	55031	genome.wustl.edu	37	11	11969594	11969594	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017944.3	+1	validated	p.V997A	1.000	371	0%	280	17.5%	6	0%	benign(0.366)	tolerated(0.98)	neutral(0.117)	NULL
COPB1	1315	genome.wustl.edu	37	11	14504652	14504652	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144061.1	-1	reviewed	p.N295D	1.000	102	0%	50	16%	48	12.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Adaptin_N,superfamily_ARM-type_fold
USH1C	10083	genome.wustl.edu	37	11	17542444	17542444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153676.3	-1	reviewed	p.H395Y	1.000	599	0%	262	42.7%	42	19%	possibly_damaging(0.513)	deleterious(0.01)	deleterious(0.578)	NULL
IGSF22	283284	genome.wustl.edu	37	11	18735673	18735673	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173588.3	-1	validated	p.S607	0.000	66	0%	31	35.5%	0	-	-	-	-	HMMPfam_I-set,superfamily_SSF48726
LOC645490	645490	genome.wustl.edu	37	11	20595812	20595812	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_928515.4	+1	model	p.G190	0.323	96	0%	37	21.6%	0	-	-	-	-	HMMPfam_HMG_box,HMMSmart_SM00398,superfamily_HMG-box
EHF	26298	genome.wustl.edu	37	11	34680110	34680110	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012153.4	+1	validated	p.I213N	1.000	258	0%	158	40.5%	70	60%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	"HMMPfam_Ets,HMMSmart_SM00413,superfamily_""Winged helix"" DNA-binding domain"
OR5D18	219438	genome.wustl.edu	37	11	55587764	55587764	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001952.1	+1	provisional	p.A220V	0.000	322	0%	214	41.1%	0	-	benign(0)	tolerated(0.96)	-	HMMPfam_7tm_1,superfamily_SSF81321
FAM111B	374393	genome.wustl.edu	37	11	58893105	58893105	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198947.3	+1	validated	p.C512Y	0.001	746	0%	471	21.9%	15	40%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	superfamily_Trypsin-like serine proteases
STX3	6809	genome.wustl.edu	37	11	59562951	59562951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004177.4	+1	reviewed	p.R261Q	1.000	172	0%	124	46%	21	52.3%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
AHNAK	79026	genome.wustl.edu	37	11	62286156	62286156	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001620.1	-1	validated	p.G5245C	0.170	188	0%	102	15.7%	23	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
FLRT1	23769	genome.wustl.edu	37	11	63883877	63883877	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013280.4	+1	reviewed	p.T46	0.975	32	0%	16	43.8%	4	100%	-	-	-	superfamily_L domain-like
SART1	9092	genome.wustl.edu	37	11	65733607	65733607	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005146.4	+1	reviewed	p.A300V	1.000	24	0%	15	26.7%	146	34.9%	possibly_damaging(0.915)	tolerated(0.05)	deleterious(0.712)	HMMPfam_SART-1
CATSPER1	117144	genome.wustl.edu	37	11	65792930	65792930	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053054.3	-1	reviewed	p.G307	0.000	27	0%	20	20%	0	-	-	-	-	superfamily_Voltage-gated potassium channels
C11orf24	53838	genome.wustl.edu	37	11	68029140	68029140	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022338.3	-1	validated	p.N441	0.880	44	0%	16	56.2%	79	40.5%	-	-	-	NULL
IGHMBP2	3508	genome.wustl.edu	37	11	68675701	68675701	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002180.2	+1	reviewed	p.T115	0.168	220	0%	82	40.2%	5	80%	-	-	-	NULL
XRRA1	143570	genome.wustl.edu	37	11	74562149	74562149	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182969.1	-1	validated	p.R447Q	0.986	85	0%	38	47.4%	4	25%	benign(0.006)	tolerated(0.11)	neutral(0.272)	superfamily_L domain-like
PRKRIR	5612	genome.wustl.edu	37	11	76063668	76063668	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004705.2	-1	provisional	p.M176V	0.998	232	0%	121	44.6%	1	100%	benign(0.081)	tolerated(0.06)	neutral(0.329)	NULL
ENSG00000214391	0	genome.wustl.edu	37	11	90016931	90016931	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000318973	+1	known	p.H360	1.000	369	0%	212	45.3%	0	-	-	-	-	superfamily_Tub_FtsZ_C,HMMPfam_Tubulin_C
CCDC67	159989	genome.wustl.edu	37	11	93170813	93170813	+	Silent	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181645.3	+1	validated	p.I581	0.960	307	0%	266	15%	0	-	-	-	-	NULL
DDI1	414301	genome.wustl.edu	37	11	103907910	103907910	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001711.2	+1	validated	p.P120	0.000	64	0%	38	44.7%	0	-	-	-	-	NULL
C11orf87	399947	genome.wustl.edu	37	11	109294891	109294891	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207645.3	+1	validated	p.A178T	0.447	100	0%	49	22.4%	0	-	benign(0)	deleterious(0)	neutral(0.445)	NULL
SIK2	23235	genome.wustl.edu	37	11	111591637	111591637	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015191.1	+1	validated	p.R599G	1.000	214	0%	97	17.5%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Protein kinase-like (PK-like)
FAM55A	120400	genome.wustl.edu	37	11	114401418	114401418	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424269	-1	known	p.T104	0.995	774	0%	365	44.9%	0	-	-	-	-	NULL
SIK3	23387	genome.wustl.edu	37	11	116728623	116728623	+	Silent	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000445177	-1	known	p.F1180V	0.995	125	0%	80	12.5%	6	33.3%	-	-	-	NULL
PHLDB1	23187	genome.wustl.edu	37	11	118499174	118499174	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144758.1	+1	validated	p.G545	1.000	7	0.000	8	0.500	1	0%	-	-	-	NULL
MCAM	4162	genome.wustl.edu	37	11	119183299	119183299	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006500.2	-1	validated	p.R267C	0.332	59	0%	67	14.9%	18	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
ZNF202	7753	genome.wustl.edu	37	11	123597537	123597537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003455.2	-1	validated	p.T372I	0.741	523	0%	283	13.8%	1	0%	probably_damaging(0.978)	tolerated(0.18)	deleterious(0.476)	NULL
ADAMTS15	170689	genome.wustl.edu	37	11	130343337	130343337	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139055.2	+1	reviewed	p.V825A	0.989	44	0%	32	37.5%	1	100%	benign(0.215)	tolerated(0.25)	neutral(0.058)	NULL
TULP3	7289	genome.wustl.edu	37	12	3047355	3047355	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003324.4	+1	reviewed	p.V367I	0.998	245	0%	137	42.3%	11	27.2%	benign(0.001)	tolerated(0.35)	neutral(0.021)	HMMPfam_Tub,superfamily_Transcriptional factor tubby C-terminal domain
C12orf4	57102	genome.wustl.edu	37	12	4627308	4627308	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020374.2	-1	predicted	p.A317T	1.000	559	0%	366	50.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF2362
ANO2	57101	genome.wustl.edu	37	12	5853389	5853389	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020373.2	-1	validated	p.A425T	1.000	166	0%	118	47.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NCAPD2	9918	genome.wustl.edu	37	12	6637024	6637024	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014865.3	+1	validated	p.R997C	1.000	277	0%	142	33.1%	82	54.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
NANOGP1	404635	genome.wustl.edu	37	12	8051415	8051415	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000316043	+1	known	p.Q205	0.315	316	0%	96	18.8%	0	-	-	-	-	NULL
KLRC4	8302	genome.wustl.edu	37	12	10562069	10562069	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013431.2	-1	reviewed	p.Q36*	0.022	475	0%	212	13.7%	0	-	-	-	-	NULL
KRAS	3845	genome.wustl.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	C	A	rs121913529	byCluster	TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033360.2	-1	reviewed	p.G12V	1.000	73	0%	42	38.1%	14	42.8%	benign(0.048)	deleterious(0)	neutral(0.448)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
ERGIC2	51290	genome.wustl.edu	37	12	29509341	29509341	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016570.2	-1	validated	p.A182	0.995	244	0.4%	120	15.8%	57	29.8%	-	-	-	HMMPfam_DUF1692
CAPRIN2	65981	genome.wustl.edu	37	12	30862859	30862859	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002259.1	-1	validated	p.G1121C	1.000	329	0%	215	20.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_C1q,HMMSmart_SM00110,superfamily_TNF-like
TSPAN11	441631	genome.wustl.edu	37	12	31106946	31106946	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080509.2	+1	validated	p.E7	0.997	166	0%	72	47.2%	0	-	-	-	-	NULL
TSPAN11	441631	genome.wustl.edu	37	12	31132560	31132560	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080509.2	+1	validated	p.P137	0.183	83	0%	22	18.2%	1	0%	-	-	-	superfamily_Tetraspanin,HMMPfam_Tetraspannin
LRRK2	120892	genome.wustl.edu	37	12	40637403	40637403	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198578.3	+1	reviewed	p.V253A	1.000	523	0%	339	19.5%	0	-	probably_damaging(0.98)	tolerated(0.35)	neutral(0.445)	superfamily_ARM-type_fold
PDZRN4	29951	genome.wustl.edu	37	12	41966638	41966638	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.A428V	1.000	321	0%	262	13.7%	0	-	benign(0.16)	deleterious(0.01)	neutral(0.420)	NULL
MLL2	8085	genome.wustl.edu	37	12	49438725	49438725	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003482.3	-1	validated	p.G1589C	1.000	87	0%	61	18%	3	0%	unknown(0)	-	-	NULL
LMBR1L	55716	genome.wustl.edu	37	12	49491747	49491747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018113.2	-1	validated	p.A461V	1.000	220	0%	92	48.9%	22	40.9%	possibly_damaging(0.952)	tolerated(0.07)	deleterious(0.715)	NULL
LMBR1L	55716	genome.wustl.edu	37	12	49496930	49496930	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018113.2	-1	validated	p.Y192S	1.000	73	1.4%	38	23.7%	39	20.5%	possibly_damaging(0.918)	tolerated(0.25)	neutral(0.405)	HMMPfam_LMBR1
CSRNP2	81566	genome.wustl.edu	37	12	51467729	51467729	+	Silent	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030809.1	-1	provisional	p.A96	1.000	448	0.2%	263	41.8%	7	42.8%	-	-	-	NULL
TFCP2	7024	genome.wustl.edu	37	12	51503011	51503011	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005653.4	-1	reviewed	p.E204K	1.000	299	0%	151	48.3%	16	43.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CP2
ESPL1	9700	genome.wustl.edu	37	12	53685840	53685840	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012291.4	+1	validated	p.R1922C	1.000	141	0%	61	29.5%	22	54.5%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	HMMPfam_Peptidase_C50
ERBB3	2065	genome.wustl.edu	37	12	56481891	56481891	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001982.2	+1	reviewed	p.E273D	0.976	137	0%	80	11.3%	17	17.6%	probably_damaging(0.998)	tolerated(0.16)	deleterious(0.534)	HMMPfam_Furin-like,superfamily_Growth factor receptor domain
ERBB3	2065	genome.wustl.edu	37	12	56482438	56482438	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001982.2	+1	reviewed	p.K329T	1.000	451	0%	230	44.8%	10	60%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Furin-like,superfamily_L domain-like
ATP5B	506	genome.wustl.edu	37	12	57038657	57038657	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001686.3	-1	reviewed	p.P131	0.995	149	0%	90	13.3%	548	34.6%	-	-	-	superfamily_N-terminal domain of alpha and beta subunits of F1 ATP synthase
TBK1	29110	genome.wustl.edu	37	12	64854074	64854074	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013254.2	+1	reviewed	p.K65E	1.000	153	0%	79	19%	2	0%	benign(0.002)	tolerated(1)	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CPSF6	11052	genome.wustl.edu	37	12	69656154	69656154	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007007.2	+1	validated	p.R491C	1.000	231	0%	96	22.9%	50	26%	unknown(0)	deleterious(0.02)	-	NULL
NAV3	89795	genome.wustl.edu	37	12	78400367	78400368	+	Frame_Shift_Ins	INS	-	-	AA	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014903.4	+1	validated	p.Q352fs	0.433:0.177	-	-	-	-	-	-	-	-	-	NULL
LRRIQ1	84125	genome.wustl.edu	37	12	85450472	85450472	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079910.1	+1	validated	p.E634G	0.156	311	0%	157	12.1%	0	-	probably_damaging(0.986)	deleterious(0.01)	deleterious(0.840)	superfamily_RNI-like
AMDHD1	144193	genome.wustl.edu	37	12	96360232	96360232	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152435.2	+1	validated	p.H380R	1.000	424	0%	122	12.3%	0	-	benign(0.283)	tolerated(0.35)	neutral(0.107)	HMMPfam_Amidohydro_1,superfamily_Composite domain of metallo-dependent hydrolases
SLC17A8	246213	genome.wustl.edu	37	12	100796122	100796122	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139319.2	+1	reviewed	p.M256I	1.000	287	0%	150	40.7%	0	-	unknown(0)	tolerated(0.44)	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
UTP20	27340	genome.wustl.edu	37	12	101684633	101684633	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014503.2	+1	validated	p.K286N	1.000	507	0%	254	21.3%	1	100%	possibly_damaging(0.931)	tolerated(0.22)	neutral(0.419)	superfamily_ARM repeat
STAB2	55576	genome.wustl.edu	37	12	104084222	104084222	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017564.9	+1	reviewed	p.T1068I	0.031	70	0%	38	28.9%	0	-	benign(0.079)	tolerated(0.29)	neutral(0.035)	HMMPfam_Fasciclin,HMMSmart_FAS1,superfamily_BIgH3_FAS1
STAB2	55576	genome.wustl.edu	37	12	104111613	104111613	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017564.9	+1	reviewed	p.C1559	0.985	509	0%	246	20.3%	0	-	-	-	-	HMMSmart_EGF,superfamily_SSF57196
HCFC2	29915	genome.wustl.edu	37	12	104492166	104492166	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013320.2	+1	reviewed	p.R596*	1.000	188	0%	125	44%	5	0%	-	-	-	HMMSmart_SM00060,superfamily_Fibronectin type III
TXNRD1	7296	genome.wustl.edu	37	12	104742191	104742191	+	Nonstop_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429002	+1	known	p.*652R	1.000	220	0%	139	42.4%	69	52.1%	-	-	-	NULL
SLC41A2	84102	genome.wustl.edu	37	12	105321815	105321815	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032148.3	-1	validated	p.L164P	0.968	526	0%	297	16.2%	8	0%	probably_damaging(0.989)	deleterious(0.02)	deleterious(0.823)	NULL
TCP11L2	255394	genome.wustl.edu	37	12	106705002	106705002	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152772.1	+1	provisional	p.S50Y	1.000	81	0%	52	40.4%	1	0%	probably_damaging(0.981)	deleterious(0.03)	deleterious(0.790)	NULL
MYO1H	283446	genome.wustl.edu	37	12	109843838	109843838	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101421.3	+1	provisional	p.K305E	1.000	198	0%	77	11.7%	0	-	possibly_damaging(0.804)	tolerated(0.95)	neutral(0.302)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
NOS1	4842	genome.wustl.edu	37	12	117768818	117768818	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000620.2	-1	reviewed	p.R19	0.187	141	0%	45	20%	0	-	-	-	-	HMMPfam_PDZ,superfamily_PDZ domain-like
GCN1L1	10985	genome.wustl.edu	37	12	120575456	120575456	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006836.1	-1	validated	p.Y2186H	1.000	77	0%	39	43.6%	48	39.5%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	superfamily_ARM repeat
ZCCHC8	55596	genome.wustl.edu	37	12	122958255	122958255	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017612.2	-1	validated	p.G638V	0.675	434	0%	215	43.7%	21	71.4%	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	NULL
HCAR1	27198	genome.wustl.edu	37	12	123214498	123214498	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032554.3	-1	validated	p.R130Q	0.983	184	0%	85	47.1%	1	0%	benign(0.255)	tolerated(0.3)	neutral(0.055)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
SLC15A4	121260	genome.wustl.edu	37	12	129278853	129278853	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145648.3	-1	validated	p.A541D	0.990	89	0%	56	12.5%	34	29.4%	possibly_damaging(0.874)	tolerated(0.05)	deleterious(0.685)	superfamily_MFS general substrate transporter
SFSWAP	6433	genome.wustl.edu	37	12	132237681	132237681	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004592.2	+1	reviewed	p.A365	1.000	180	0%	114	48.2%	32	56.2%	-	-	-	NULL
TPTE2	93492	genome.wustl.edu	37	13	20006719	20006719	+	Splice_Site	SNP	C	C	G	rs75793549		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199254.2	-1	validated	e16-1	1.000	221	6.3%	108	13%	0	-	-	-	-	-
XPO4	64328	genome.wustl.edu	37	13	21370324	21370324	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022459.4	-1	validated	p.R896	0.990	332	0%	163	12.9%	3	0%	-	-	-	superfamily_ARM-type_fold
SACS	26278	genome.wustl.edu	37	13	23909322	23909322	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014363.4	-1	reviewed	p.R2898H	1.000	159	0%	108	48.1%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
WASF3	10810	genome.wustl.edu	37	13	27256923	27256923	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006646.5	+1	reviewed	p.T388N	0.000	35	0%	20	50%	12	66.6%	benign(0.086)	tolerated(0.18)	neutral(0.062)	NULL
GPR12	2835	genome.wustl.edu	37	13	27333098	27333098	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005288.3	-1	validated	p.P289	0.521	43	0%	23	69.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
POMP	51371	genome.wustl.edu	37	13	29238679	29238679	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015932.4	+1	validated	p.S45	1.000	247	0%	97	42.3%	91	56%	-	-	-	HMMPfam_UMP1
BRCA2	675	genome.wustl.edu	37	13	32932011	32932011	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000059.3	+1	reviewed	p.G2584C	1.000	577	0%	261	11.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_BRCA-2_helical,superfamily_BRCA2_helical
NBEA	26960	genome.wustl.edu	37	13	35716412	35716412	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	p.K781	1.000	417	0%	199	51.8%	0	-	-	-	-	superfamily_ARM repeat
KIAA0564	23078	genome.wustl.edu	37	13	42293729	42293729	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015058.1	-1	validated	p.K1038	1.000	205	0%	99	39.4%	11	54.5%	-	-	-	NULL
TDRD3	81550	genome.wustl.edu	37	13	61102848	61102848	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030794.2	+1	validated	p.K404*	1.000	275	0%	169	15.4%	2	50%	-	-	-	NULL
MYCBP2	23077	genome.wustl.edu	37	13	77629710	77629710	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015057.4	-1	validated	p.C4506S	1.000	261	0%	174	13.2%	22	13.6%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
IPO5	3843	genome.wustl.edu	37	13	98671949	98671949	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002271.4	+1	reviewed	p.P1002H	0.998	299	0%	157	14%	205	26.3%	benign(0.02)	tolerated(0.2)	neutral(0.050)	superfamily_ARM-type_fold
DAOA	267012	genome.wustl.edu	37	13	106142224	106142224	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000454325	+1	known	p.P58S	0.008	118	0%	67	46.3%	0	-	-	-	-	NULL
FAM70B	348013	genome.wustl.edu	37	13	114498139	114498139	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182614.2	+1	provisional	p.F91L	1.000	68	0%	24	20.8%	12	0%	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	NULL
CDC16	8881	genome.wustl.edu	37	13	115028491	115028491	+	Splice_Site	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001078645.1	+1	reviewed	e16+2	1.000	348	0%	208	18.8%	0	-	-	-	-	-
OR4K2	390431	genome.wustl.edu	37	14	20345046	20345046	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005501.1	+1	provisional	p.A207V	0.771	577	0%	338	50.3%	0	-	possibly_damaging(0.815)	tolerated(0.09)	deleterious(0.604)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR4K5	79317	genome.wustl.edu	37	14	20388832	20388832	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005483.1	+1	provisional	p.L23F	0.002	666	0%	464	14.7%	0	-	benign(0.356)	deleterious(0.01)	deleterious(0.519)	superfamily_SSF81321
MMP14	4323	genome.wustl.edu	37	14	23313602	23313602	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004995.2	+1	reviewed	p.R345M	1.000	156	0%	68	10.3%	78	2.5%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	superfamily_Hemopexin-like domain,HMMPfam_Hemopexin,HMMSmart_SM00120
NGDN	25983	genome.wustl.edu	37	14	23947228	23947228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042635.1	+1	validated	p.R314Q	1.000	282	0%	146	12.3%	23	4.3%	unknown(0)	tolerated(0.33)	-	NULL
RNF31	55072	genome.wustl.edu	37	14	24627349	24627349	+	Splice_Site	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017999.4	+1	validated	e18-2	0.998	95	0%	63	54%	1	100%	-	-	-	-
FANCM	57697	genome.wustl.edu	37	14	45653023	45653023	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020937.2	+1	reviewed	p.C1478Y	0.000	185	0%	66	15.2%	0	-	benign(0)	tolerated(0.1)	neutral(0.286)	NULL
MAP4K5	11183	genome.wustl.edu	37	14	50895429	50895429	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006575.3	-1	reviewed	p.S759	1.000	20	0%	14	35.7%	5	80%	-	-	-	HMMPfam_CNH,HMMSmart_SM00036
TXNDC16	57544	genome.wustl.edu	37	14	52937281	52937281	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020784.2	-1	validated	p.V477E	0.574	338	0%	193	21.8%	0	-	probably_damaging(0.991)	tolerated(0.34)	neutral(0.467)	superfamily_Thioredoxin-like,HMMPfam_Thioredoxin
C14orf37	145407	genome.wustl.edu	37	14	58605170	58605170	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001872.2	-1	predicted	p.A303S	0.022	149	0%	99	49.5%	0	-	benign(0.046)	tolerated(0.56)	neutral(0.009)	NULL
ARID4A	5926	genome.wustl.edu	37	14	58831834	58831834	+	Silent	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002892.3	+1	reviewed	p.L1009	0.118	436	0%	209	11%	1	0%	-	-	-	NULL
SLC39A9	55334	genome.wustl.edu	37	14	69922504	69922504	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018375.3	+1	validated	p.N205S	1.000	416	0.2%	211	13.7%	48	12.5%	probably_damaging(0.968)	tolerated(0.68)	neutral(0.412)	HMMPfam_Zip
RGS6	9628	genome.wustl.edu	37	14	72921238	72921238	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004296.4	+1	validated	p.T63A	0.996	477	0%	201	18.4%	1	0%	benign(0)	tolerated(0.86)	neutral(0.001)	"HMMPfam_DEP,HMMSmart_SM00049,superfamily_""Winged helix"" DNA-binding domain"
PSEN1	5663	genome.wustl.edu	37	14	73659520	73659520	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000021.3	+1	reviewed	p.K239	1.000	319	0%	265	12.8%	54	0%	-	-	-	HMMPfam_Presenilin,HMMSmart_SM00730
YLPM1	56252	genome.wustl.edu	37	14	75265122	75265122	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019589.2	+1	validated	p.R1041H	1.000	444	0%	226	23.5%	16	12.5%	possibly_damaging(0.924)	deleterious(0)	deleterious(0.818)	NULL
SNW1	22938	genome.wustl.edu	37	14	78217746	78217746	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012245.2	-1	reviewed	p.M82I	1.000	247	0%	140	48.6%	16	43.7%	benign(0.001)	tolerated(0.19)	neutral(0.050)	NULL
SEL1L	6400	genome.wustl.edu	37	14	81955615	81955615	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005065.4	-1	validated	p.Y459C	1.000	495	0%	200	39.5%	29	34.4%	probably_damaging(0.997)	tolerated(0.16)	deleterious(0.526)	HMMPfam_Sel1,HMMSmart_SM00671,superfamily_HCP-like
SETD3	84193	genome.wustl.edu	37	14	99932086	99932086	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032233.2	-1	validated	p.T19	0.071	219	0%	145	48.3%	11	45.4%	-	-	-	NULL
LOC100288131	100288131	genome.wustl.edu	37	14	101194887	101194887	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343290.1	-1	model	p.G79	0.015	18	0.000	7	0.571	0	-	-	-	-	NULL
PPP2R5C	5527	genome.wustl.edu	37	14	102348535	102348535	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002719.3	+1	reviewed	p.S111Y	1.000	139	1.4%	30	26.7%	71	29.5%	possibly_damaging(0.908)	tolerated(0.07)	deleterious(0.680)	HMMPfam_B56,superfamily_ARM repeat
CYFIP1	23191	genome.wustl.edu	37	15	22947029	22947029	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014608.2	+1	validated	p.E434	1.000	201	0%	101	10.9%	131	15.2%	-	-	-	HMMPfam_FragX_IP
C15orf2	23742	genome.wustl.edu	37	15	24922475	24922475	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018958.2	+1	reviewed	p.V487	0.000	643	0%	479	46.3%	0	-	-	-	-	NULL
LOC100288637	100288637	genome.wustl.edu	37	15	31042673	31042673	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343359.1	+1	model	p.P22H	0.998	196	0%	93	15.1%	1	0%	-	-	-	NULL
SLC12A6	9990	genome.wustl.edu	37	15	34548436	34548436	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133647.1	-1	reviewed	p.V247M	1.000	485	0%	203	36.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_AA_permease
NUSAP1	51203	genome.wustl.edu	37	15	41663828	41663828	+	Missense_Mutation	SNP	G	G	A	rs143641947	by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016359.3	+1	validated	p.E318K	0.997	96	0%	61	13.1%	37	2.7%	benign(0)	tolerated(1)	-	NULL
EPB42	2038	genome.wustl.edu	37	15	43507315	43507315	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000119.2	-1	reviewed	p.L166	0.995	134	0%	103	46.6%	0	-	-	-	-	superfamily_Ig_E-set
SLC30A4	7782	genome.wustl.edu	37	15	45783053	45783053	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013309.4	-1	validated	p.L189	0.926	370	0%	263	36.5%	0	-	-	-	-	HMMPfam_Cation_efflux
FAM81A	145773	genome.wustl.edu	37	15	59752262	59752262	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152450.2	+1	validated	p.A51T	1.000	268	0%	161	45.3%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
HERC1	8925	genome.wustl.edu	37	15	64019996	64019996	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003922.3	-1	reviewed	p.I1066V	1.000	284	0%	157	60.5%	1	0%	benign(0)	-	-	NULL
ZWILCH	55055	genome.wustl.edu	37	15	66801186	66801186	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017975.3	+1	validated	p.N21D	0.999	101	1%	45	11.1%	1	0%	benign(0)	tolerated(0.72)	neutral(0.002)	NULL
SENP8	123228	genome.wustl.edu	37	15	72432394	72432394	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145204.3	+1	reviewed	p.G144*	0.998	257	0%	185	15.7%	1	100%	-	-	-	HMMPfam_Peptidase_C48,superfamily_SSF54001
NEIL1	79661	genome.wustl.edu	37	15	75644553	75644553	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024608.2	+1	validated	p.R179Q	1.000	75	0%	42	16.7%	13	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_S13-like H2TH domain,HMMPfam_H2TH
SIN3A	25942	genome.wustl.edu	37	15	75684761	75684763	+	In_Frame_Del	DEL	GTT	GTT	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	GTT	GTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145357.1	-1	reviewed	p.N891in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
ALPK3	57538	genome.wustl.edu	37	15	85400602	85400602	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020778.4	+1	validated	p.S1080N	0.000	29	0%	37	43.2%	0	-	possibly_damaging(0.83)	deleterious(0)	deleterious(0.760)	NULL
RLBP1	6017	genome.wustl.edu	37	15	89761830	89761830	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000326.4	-1	reviewed	p.P36L	0.000	40	0%	25	44%	0	-	benign(0.083)	tolerated(0.19)	neutral(0.056)	NULL
SV2B	9899	genome.wustl.edu	37	15	91795123	91795123	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014848.4	+1	validated	p.R176*	1.000	146	0%	84	44%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
CHD2	1106	genome.wustl.edu	37	15	93467598	93467598	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001271.3	+1	reviewed	p.S37L	1.000	999	0.1%	284	45.8%	4	50%	unknown(0)	deleterious(0)	-	NULL
SYNM	23336	genome.wustl.edu	37	15	99671456	99671456	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000336292	+1	known	p.M963T	0.967	10	0.000	9	0.444	1	100%	possibly_damaging(0.452)	deleterious(0)	deleterious(0.593)	NULL
ZNF200	7752	genome.wustl.edu	37	16	3273955	3273955	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003454.3	-1	validated	p.R375	0.997	611	0%	331	18.1%	7	57.1%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF263	10127	genome.wustl.edu	37	16	3340127	3340128	+	Frame_Shift_Del	DEL	GA	GA	-	rs186225306	by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	GA	GA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005741.4	+1	validated	p.R544fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
TRAP1	10131	genome.wustl.edu	37	16	3740897	3740897	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016292.2	-1	validated	p.S60G	0.964	62	0%	22	54.5%	137	45.2%	benign(0.177)	deleterious(0.01)	neutral(0.422)	NULL
CLEC16A	23274	genome.wustl.edu	37	16	11260318	11260318	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000261657	+1	known	p.R97W	1.000	53	0%	34	20.6%	11	18.1%	-	-	-	NULL
MKL2	57496	genome.wustl.edu	37	16	14280827	14280827	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000341243	+1	known	p.G19E	1.000	149	0%	115	20.9%	0	-	benign(0.004)	tolerated(0.52)	neutral(0.009)	NULL
NOMO1	23420	genome.wustl.edu	37	16	14970275	14970275	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014287.3	+1	reviewed	p.Q806*	1.000	630	0.2%	267	11.6%	70	0%	-	-	-	NULL
SMG1	23049	genome.wustl.edu	37	16	18907388	18907388	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.M133T	1.000	155	0%	76	34.2%	0	-	possibly_damaging(0.448)	deleterious(0.01)	deleterious(0.552)	NULL
TMC5	79838	genome.wustl.edu	37	16	19501868	19501868	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105248.1	+1	validated	p.F909V	1.000	903	0%	412	47.6%	21	57.1%	possibly_damaging(0.555)	tolerated(0.12)	neutral(0.450)	NULL
GP2	2813	genome.wustl.edu	37	16	20325989	20325989	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007240.1	-1	validated	p.P515	0.008	304	0%	273	44%	51	56.8%	-	-	-	NULL
DNAH3	55567	genome.wustl.edu	37	16	21063004	21063004	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.D1409N	1.000	264	0%	131	19.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_P-loop containing nucleoside triphosphate hydrolases
COG7	91949	genome.wustl.edu	37	16	23453915	23453915	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153603.3	-1	reviewed	p.M163V	1.000	593	0%	333	15.6%	27	33.3%	benign(0.012)	tolerated(0.34)	neutral(0.024)	HMMPfam_COG7
TNRC6A	27327	genome.wustl.edu	37	16	24826565	24826565	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.I1590M	1.000	341	0.6%	71	38%	0	-	possibly_damaging(0.929)	tolerated(0.09)	deleterious(0.672)	NULL
ARHGAP17	55114	genome.wustl.edu	37	16	24931471	24931471	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006634.1	-1	validated	p.T876A	0.182	133	0%	74	12.2%	45	15.5%	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
APOBR	55911	genome.wustl.edu	37	16	28508889	28508889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018690.2	+1	reviewed	p.A834T	0.029	87	0%	57	15.8%	1	0%	benign(0.269)	tolerated(0.31)	neutral(0.056)	NULL
ZNF689	115509	genome.wustl.edu	37	16	30616383	30616383	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138447.1	-1	provisional	p.C235	1.000	114	0%	47	17%	4	50%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
CES5A	221223	genome.wustl.edu	37	16	55883625	55883625	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143685.1	-1	validated	p.T445M	0.000	607	0%	283	45.2%	0	-	possibly_damaging(0.952)	tolerated(0.48)	neutral(0.406)	HMMPfam_COesterase,superfamily_alpha/beta-Hydrolases
CPNE2	221184	genome.wustl.edu	37	16	57171150	57171150	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152727.4	+1	reviewed	p.V420M	1.000	114	0%	59	13.6%	131	24.4%	possibly_damaging(0.856)	deleterious(0.03)	deleterious(0.695)	HMMSmart_VWA,HMMPfam_Copine,superfamily_SSF53300
POLR2C	5432	genome.wustl.edu	37	16	57500138	57500138	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032940.2	+1	reviewed	p.R86Q	1.000	760	0%	330	41.8%	112	45.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_RBP11-like subunits of RNA polymerase,HMMPfam_RNA_pol_L,HMMPfam_RNA_pol_A_bac,superfamily_Insert subdomain of RNA polymerase alpha subunit,HMMSmart_SM00662
CNOT1	23019	genome.wustl.edu	37	16	58572108	58572108	+	Missense_Mutation	SNP	C	C	T	rs185344213	by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016284.3	-1	validated	p.R1733H	1.000	301	0%	191	12.6%	59	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
CDH11	1009	genome.wustl.edu	37	16	64984770	64984770	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001797.2	-1	reviewed	p.N598	0.159	79	0%	38	42.1%	7	14.2%	-	-	-	HMMSmart_SM00112,superfamily_Cadherin-like
SLC9A5	6553	genome.wustl.edu	37	16	67300017	67300019	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	GAG	GAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004594.2	+1	validated	p.E706in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
EDC4	23644	genome.wustl.edu	37	16	67909957	67909957	+	Silent	SNP	T	T	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014329.3	+1	validated	p.T64	0.645	107	0%	76	28.9%	22	54.5%	-	-	-	NULL
PLA2G15	23659	genome.wustl.edu	37	16	68289816	68289817	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012320.3	+1	reviewed	p.K218fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_LACT,superfamily_alpha/beta-Hydrolases
NFAT5	10725	genome.wustl.edu	37	16	69681410	69681410	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138713.2	+1	reviewed	p.A245T	1.000	246	0%	116	56.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NFAT5	10725	genome.wustl.edu	37	16	69726141	69726141	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138713.2	+1	reviewed	p.T805A	0.950	514	0%	294	11.6%	0	-	benign(0)	tolerated(1)	-	NULL
ANKRD11	29123	genome.wustl.edu	37	16	89337251	89337251	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013275.4	-1	validated	p.V2594M	1.000	20	0%	12	41.7%	22	31.8%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
TUBB3	10381	genome.wustl.edu	37	16	90001903	90001903	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006086.2	+1	validated	p.N348	0.990	55	0%	58	51.7%	33	57.5%	-	-	-	superfamily_Tubulin C-terminal domain-like,HMMPfam_Tubulin_C
ARRB2	409	genome.wustl.edu	37	17	4623554	4623554	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004313.3	+1	reviewed	p.S321A	1.000	93	0%	75	14.7%	70	21.4%	benign(0.003)	deleterious(0)	neutral(0.445)	HMMPfam_Arrestin_C,superfamily_E set domains
SLC13A5	284111	genome.wustl.edu	37	17	6599187	6599187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177550.3	-1	validated	p.E305K	1.000	137	0%	98	45.9%	0	-	possibly_damaging(0.804)	deleterious(0.01)	deleterious(0.708)	HMMPfam_Na_sulph_symp
SLC2A4	6517	genome.wustl.edu	37	17	7186567	7186570	+	Frame_Shift_Del	DEL	GGGG	GGGG	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	GGGG	GGGG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042.2	+1	reviewed	p.G13fs	0.889:0.875:0.711:0.726	-	-	-	-	-	-	-	-	-	superfamily_MFS_gen_substrate_transporter
NLGN2	57555	genome.wustl.edu	37	17	7318071	7318071	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020795.2	+1	reviewed	p.A250T	1.000	56	0%	60	50%	4	0%	possibly_damaging(0.888)	deleterious(0.03)	deleterious(0.712)	HMMPfam_COesterase,superfamily_SSF53474
TP53	7157	genome.wustl.edu	37	17	7577563	7577563	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000546.4	-1	reviewed	p.S240G	1.000	167	0%	75	14.7%	205	10.7%	possibly_damaging(0.812)	tolerated(0.2)	neutral(0.354)	PatternScan_P53,superfamily_p53-like transcription factors,HMMPfam_P53
WRAP53	55135	genome.wustl.edu	37	17	7604841	7604841	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018081.2	+1	validated	p.A266T	1.000	109	0%	63	23.8%	25	20%	probably_damaging(0.998)	tolerated(0.07)	deleterious(0.793)	HMMSmart_WD40,superfamily_WD40_like
CHD3	1107	genome.wustl.edu	37	17	7811750	7811750	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005271.2	+1	reviewed	p.R1787L	1.000	153	0.7%	131	17.6%	60	41.6%	probably_damaging(1)	-	-	NULL
GUCY2D	3000	genome.wustl.edu	37	17	7915536	7915536	+	Silent	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000180.3	+1	reviewed	p.A608	0.000	63	1.6%	37	10.8%	0	-	-	-	-	superfamily_Kinase_like,HMMPfam_Pkinase
SPDYE4	388333	genome.wustl.edu	37	17	8656781	8656783	+	In_Frame_Del	DEL	TCC	TCC	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	TCC	TCC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128076.1	-1	provisional	p.E170in_frame_del	0.189:0.203:0.290	-	-	-	-	-	-	-	-	-	NULL
USP43	124739	genome.wustl.edu	37	17	9631817	9631817	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153210.3	+1	validated	p.M961T	0.000	41	0%	27	48.1%	5	60%	benign(0)	tolerated(0.52)	neutral(0.009)	NULL
MYH3	4621	genome.wustl.edu	37	17	10533470	10533472	+	In_Frame_Del	DEL	TTC	TTC	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	TTC	TTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002470.2	-1	reviewed	p.K1833in_frame_del	0.794:0.960:0.978	-	-	-	-	-	-	-	-	-	HMMPfam_Myosin_tail_1
CCDC144A	9720	genome.wustl.edu	37	17	16610846	16610846	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014695.1	+1	provisional	p.K243M	0.029	185	0%	83	10.8%	0	-	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	NULL
MYO15A	51168	genome.wustl.edu	37	17	18023067	18023067	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016239.3	+1	reviewed	p.P318H	0.963	21	0%	15	40%	0	-	unknown(0)	-	-	NULL
B9D1	27077	genome.wustl.edu	37	17	19246703	19246703	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015681.3	-1	reviewed	p.G182S	1.000	54	0%	26	23.1%	29	24.1%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
SPAG5	10615	genome.wustl.edu	37	17	26911669	26911669	+	Splice_Site	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006461.3	-1	reviewed	e11+1	1.000	229	0%	136	15.4%	0	-	-	-	-	-
PHF12	57649	genome.wustl.edu	37	17	27240275	27240275	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033561.1	-1	validated	p.A438	0.994	121	0%	43	41.9%	22	40.9%	-	-	-	NULL
PIPOX	51268	genome.wustl.edu	37	17	27370349	27370349	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016518.2	+1	validated	p.L36	1.000	134	0%	64	18.8%	0	-	-	-	-	HMMPfam_DAO,superfamily_FAD/NAD(P)-binding domain
ENSG00000228768	0	genome.wustl.edu	37	17	29902622	29902622	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412403	+1	known	p.V133	0.000	40	0%	41	61%	0	-	-	-	-	NULL
CDK5R1	8851	genome.wustl.edu	37	17	30815154	30815154	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003885.2	+1	reviewed	p.T172	1.000	14	0%	13	46.2%	2	50%	-	-	-	HMMPfam_CDK5_activator,superfamily_Cyclin-like
ACACA	31	genome.wustl.edu	37	17	35444285	35444285	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198834.1	-1	reviewed	p.R2373L	1.000	98	0%	53	11.3%	37	0%	possibly_damaging(0.657)	deleterious(0.01)	deleterious(0.637)	NULL
SRCIN1	80725	genome.wustl.edu	37	17	36708714	36708714	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025248.2	-1	validated	p.G817R	0.907	8	0.000	12	0.333	2	0%	possibly_damaging(0.662)	tolerated(0.11)	deleterious(0.506)	NULL
ENSG00000246237	0	genome.wustl.edu	37	17	38209481	38209481	+	RNA	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000501516	+1	novel	NULL	0.001	73	0%	74	45.9%	0	-	-	-	-	-
KRT28	162605	genome.wustl.edu	37	17	38953471	38953471	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181535.3	-1	reviewed	p.P251	0.003	118	0%	62	29%	0	-	-	-	-	HMMPfam_Filament
ITGA2B	3674	genome.wustl.edu	37	17	42454433	42454433	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000419.3	-1	reviewed	p.S737	0.986	12	0.000	9	0.444	0	-	-	-	-	HMMPfam_Integrin_alpha2,superfamily_Integrin domains
C17orf104	284071	genome.wustl.edu	37	17	42744904	42744904	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145080.2	+1	validated	p.A542V	1.000	118	0%	76	15.8%	0	-	benign(0.212)	tolerated(0.15)	neutral(0.262)	NULL
BZRAP1	9256	genome.wustl.edu	37	17	56390032	56390032	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004758.2	-1	validated	p.R717H	0.999	17	0.000	8	0.750	0	-	probably_damaging(0.982)	tolerated(0.09)	deleterious(0.723)	HMMSmart_SM00326,superfamily_SH3-domain,HMMPfam_SH3_2
RNF43	54894	genome.wustl.edu	37	17	56435378	56435378	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017763.4	-1	validated	p.P587S	0.864	126	0%	58	12.1%	3	0%	benign(0.315)	tolerated(0.08)	neutral(0.398)	NULL
HEATR6	63897	genome.wustl.edu	37	17	58132926	58132926	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022070.4	-1	validated	p.Y747N	1.000	112	0%	80	50%	16	68.7%	possibly_damaging(0.545)	tolerated(0.19)	neutral(0.234)	superfamily_ARM-type_fold
TACO1	51204	genome.wustl.edu	37	17	61684783	61684783	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016360.3	+1	reviewed	p.V218I	1.000	290	0%	183	12.6%	65	12.3%	probably_damaging(0.975)	tolerated(0.28)	neutral(0.449)	HMMPfam_DUF28,superfamily_YebC-like
CCDC47	57003	genome.wustl.edu	37	17	61829374	61829374	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020198.2	-1	validated	p.R433W	1.000	300	0%	138	10.1%	189	4.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF1682
ERN1	2081	genome.wustl.edu	37	17	62175585	62175585	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001433.3	-1	reviewed	p.S24N	1.000	279	0%	150	42%	2	100%	benign(0.003)	tolerated(0.16)	neutral(0.059)	superfamily_Quinoprotein alcohol dehydrogenase-like
NOL11	25926	genome.wustl.edu	37	17	65718702	65718702	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015462.3	+1	provisional	p.T156	0.592	203	0%	104	12.5%	10	0%	-	-	-	NULL
BPTF	2186	genome.wustl.edu	37	17	65850454	65850454	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182641.3	+1	reviewed	p.K338*	0.656	254	0%	213	24.4%	8	0%	-	-	-	NULL
BPTF	2186	genome.wustl.edu	37	17	65900909	65900909	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182641.3	+1	reviewed	p.K922R	0.991	357	0%	139	12.9%	2	0%	probably_damaging(0.981)	tolerated(0.65)	neutral(0.428)	NULL
MIR635	693220	genome.wustl.edu	37	17	66420621	66420621	+	RNA	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384830	-1	known	NULL	0.000	48	0%	14	28.6%	2	50%	-	-	-	-
ABCA9	10350	genome.wustl.edu	37	17	66980228	66980228	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080283.3	-1	reviewed	p.R1490*	1.000	248	0%	148	48%	0	-	-	-	-	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
KCNJ2	3759	genome.wustl.edu	37	17	68171947	68171947	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000891.2	+1	reviewed	p.S256N	1.000	185	0%	125	16.8%	0	-	benign(0.001)	tolerated(0.49)	neutral(0.011)	HMMPfam_IRK,superfamily_E set domains
SDK2	54549	genome.wustl.edu	37	17	71364667	71364667	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144952.1	-1	provisional	p.E1682D	0.999	17	0%	16	25%	1	0%	probably_damaging(0.977)	tolerated(0.23)	neutral(0.460)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
SLC16A5	9121	genome.wustl.edu	37	17	73089833	73089833	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004695.2	+1	provisional	p.I34	0.079	208	0.5%	99	40.4%	5	60%	-	-	-	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
UBE2O	63893	genome.wustl.edu	37	17	74387074	74387074	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022066.3	-1	validated	p.R1277W	1.000	38	0%	24	37.5%	26	46.1%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
PDE6G	5148	genome.wustl.edu	37	17	79620238	79620238	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002602.3	-1	reviewed	p.R33Q	1.000	158	0%	99	16.2%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_PDE6_gamma
ENOSF1	55556	genome.wustl.edu	37	18	675400	675400	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_202758.2	-1	validated	p.V391A	1.000	42	0%	34	26.5%	32	18.7%	benign(0.013)	tolerated(0.11)	neutral(0.272)	superfamily_SSF51604
TGIF1	7050	genome.wustl.edu	37	18	3451995	3451995	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170695.2	+1	reviewed	p.S6	0.001	43	0%	16	43.8%	8	87.5%	-	-	-	NULL
LAMA1	284217	genome.wustl.edu	37	18	6986214	6986214	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005559.2	-1	validated	p.L1767	0.000	276	0%	112	18.8%	8	12.5%	-	-	-	superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_I
SPIRE1	56907	genome.wustl.edu	37	18	12506551	12506551	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128626.1	-1	validated	p.I299	0.956	482	0%	263	17.9%	2	0%	-	-	-	NULL
NPC1	4864	genome.wustl.edu	37	18	21148892	21148892	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000271.4	-1	reviewed	p.F120V	1.000	162	0%	100	14%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LAMA3	3909	genome.wustl.edu	37	18	21478720	21478720	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198129.1	+1	reviewed	p.R1878C	0.835	445	0%	204	11.8%	1	0%	possibly_damaging(0.873)	deleterious(0.03)	deleterious(0.704)	HMMPfam_Laminin_I
OSBPL1A	114876	genome.wustl.edu	37	18	21912974	21912974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080597.2	-1	reviewed	p.R186Q	1.000	206	0%	71	31%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
DSG4	147409	genome.wustl.edu	37	18	28972130	28972130	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134453.1	+1	reviewed	p.I278V	1.000	221	0%	166	19.3%	0	-	possibly_damaging(0.618)	tolerated(0.79)	neutral(0.216)	HMMPfam_Cadherin,superfamily_Cadherin
ASXL3	80816	genome.wustl.edu	37	18	31324282	31324282	+	Silent	SNP	C	C	A	rs185893902	by1000genomes	TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030632.1	+1	provisional	p.S1490	0.406	134	0%	51	41.2%	0	-	-	-	-	NULL
ZBTB7C	201501	genome.wustl.edu	37	18	45566976	45566976	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039360.1	-1	validated	p.T168M	0.203	91	0%	83	50.6%	21	90.4%	benign(0.365)	deleterious(0.04)	neutral(0.465)	NULL
ALPK2	115701	genome.wustl.edu	37	18	56246440	56246440	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052947.3	-1	validated	p.K523fs	0.000	-	-	-	-	-	-	-	-	-	NULL
ADNP2	22850	genome.wustl.edu	37	18	77895891	77895891	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014913.3	+1	validated	p.G865	0.000	70	0%	56	10.7%	19	15.7%	-	-	-	NULL
SHC2	25759	genome.wustl.edu	37	19	434853	434853	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012435.2	-1	validated	p.P322	0.831	17	0.118	7	0.857	1	0%	-	-	-	NULL
MOB3A	126308	genome.wustl.edu	37	19	2078510	2078510	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130807.2	-1	validated	p.R17H	1.000	26	0%	17	35.3%	3	66.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZNF77	58492	genome.wustl.edu	37	19	2933788	2933788	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021217.2	-1	validated	p.S446N	0.000	234	0%	139	17.3%	6	33.3%	benign(0.033)	tolerated(0.28)	neutral(0.033)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
TUBB4A	10382	genome.wustl.edu	37	19	6495952	6495952	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006087.2	-1	provisional	p.T186	0.013	467	0.2%	191	12.6%	0	-	-	-	-	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like
INSR	3643	genome.wustl.edu	37	19	7117280	7117280	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000208.2	-1	reviewed	p.P1312	0.009	263	0%	142	12.7%	6	0%	-	-	-	NULL
ARHGEF18	23370	genome.wustl.edu	37	19	7523496	7523496	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130955.1	+1	reviewed	p.G572	0.976	85	0%	51	11.8%	10	0%	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
CLEC4G	339390	genome.wustl.edu	37	19	7794385	7794385	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198492.3	-1	validated	p.W250*	1.000	59	0%	37	73%	0	-	-	-	-	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
ZNF317	57693	genome.wustl.edu	37	19	9268075	9268075	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000419608	+1	known	p.K112	0.381	514	0%	259	18.5%	0	-	-	-	-	HMMSmart_KRAB,superfamily_Krueppel-associated_box
ZNF561	93134	genome.wustl.edu	37	19	9721118	9721118	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152289.2	-1	validated	p.R407S	0.000	944	0.1%	526	19.4%	18	27.7%	benign(0.076)	tolerated(0.43)	neutral(0.019)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
SWSAP1	126074	genome.wustl.edu	37	19	11486212	11486212	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175871.3	+1	validated	p.P70	1.000	508	0.2%	243	11.9%	8	37.5%	-	-	-	superfamily_SSF52540
MAN2B1	4125	genome.wustl.edu	37	19	12760754	12760754	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000528.3	-1	reviewed	p.S747I	1.000	418	0%	229	46.3%	239	51.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Gal_mut_like,HMMPfam_Glyco_hydro_38C
ASNA1	439	genome.wustl.edu	37	19	12849336	12849336	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004317.2	+1	validated	p.A58V	1.000	153	0.7%	82	15.9%	251	30.6%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_ArsA_ATPase,superfamily_P-loop containing nucleoside triphosphate hydrolases
PKN1	5585	genome.wustl.edu	37	19	14578406	14578406	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213560.1	+1	reviewed	p.P593	0.000	34	0%	50	20%	55	7.2%	-	-	-	NULL
ARRDC2	27106	genome.wustl.edu	37	19	18120435	18120435	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015683.1	+1	validated	p.R175Q	1.000	21	0%	21	19%	6	0%	benign(0.301)	tolerated(0.38)	neutral(0.111)	superfamily_E set domains
ZNF66P	7617	genome.wustl.edu	37	19	20975342	20975342	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425625	+1	known	p.A56T	0.142	443	0%	159	52.8%	2	0%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF66P	7617	genome.wustl.edu	37	19	20989034	20989034	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425625	+1	known	p.F256V	0.305	782	0%	273	42.1%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF66P	7617	genome.wustl.edu	37	19	20989315	20989315	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425625	+1	known	p.H349Q	0.945	1170	0%	389	39.1%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF99	7652	genome.wustl.edu	37	19	22940428	22940428	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080409.1	-1	provisional	p.C670	0.001	911	0.1%	357	41.7%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
TSHZ3	57616	genome.wustl.edu	37	19	31770067	31770067	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020856.2	-1	validated	p.A211V	1.000	254	0.4%	132	39.4%	1	100%	possibly_damaging(0.762)	deleterious(0)	deleterious(0.727)	NULL
WDR62	284403	genome.wustl.edu	37	19	36594596	36594596	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083961.1	+1	validated	p.G1289D	1.000	36	0%	27	25.9%	17	5.8%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
IL29	282618	genome.wustl.edu	37	19	39787521	39787521	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172140.1	+1	reviewed	p.Q83R	0.692	376	0%	241	14.1%	0	-	benign(0.223)	tolerated(0.1)	neutral(0.308)	NULL
PAF1	54623	genome.wustl.edu	37	19	39876915	39876915	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019088.2	-1	provisional	p.E438K	0.999	198	0%	93	17.2%	557	24.2%	unknown(0)	tolerated(0.31)	-	HMMPfam_Paf1
FBL	2091	genome.wustl.edu	37	19	40331138	40331138	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001436.3	-1	reviewed	p.G67S	0.618	1043	0%	613	14%	193	38.3%	unknown(0)	deleterious(0.01)	-	NULL
FCGBP	8857	genome.wustl.edu	37	19	40419740	40419740	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003890.2	-1	validated	p.Q1085R	0.005	232	0%	113	10.6%	6	16.6%	probably_damaging(0.99)	tolerated(0.21)	deleterious(0.485)	HMMPfam_C8
ZNF780B	163131	genome.wustl.edu	37	19	40541305	40541305	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005851.2	-1	validated	p.Q487	0.000	573	0.2%	387	48.6%	1	100%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PRX	57716	genome.wustl.edu	37	19	40900361	40900361	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181882.2	-1	reviewed	p.A1300T	0.000	20	0%	18	22.2%	0	-	possibly_damaging(0.621)	tolerated(0.12)	deleterious(0.477)	NULL
AXL	558	genome.wustl.edu	37	19	41748792	41748792	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021913.3	+1	reviewed	p.K439N	0.997	237	0.4%	93	12.9%	1	0%	benign(0.046)	tolerated(0.31)	neutral(0.029)	NULL
LIPE	3991	genome.wustl.edu	37	19	42906917	42906917	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005357.2	-1	reviewed	p.V937I	0.000	30	0%	19	47.4%	14	28.5%	benign(0.059)	tolerated(0.16)	neutral(0.064)	HMMPfam_Abhydrolase_3,superfamily_alpha/beta-Hydrolases
LIPE	3991	genome.wustl.edu	37	19	42931022	42931022	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005357.2	-1	reviewed	p.A94T	0.031	335	0%	152	12.5%	0	-	benign(0.195)	deleterious(0)	neutral(0.463)	NULL
DMWD	1762	genome.wustl.edu	37	19	46289541	46289542	+	In_Frame_Ins	INS	-	-	CTC	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004943.1	-1	validated	p.404in_frame_insE	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
IZUMO1	284359	genome.wustl.edu	37	19	49248936	49248936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182575.2	-1	validated	p.V61M	0.000	164	0%	103	44.7%	0	-	probably_damaging(0.978)	deleterious(0.01)	deleterious(0.826)	NULL
SLC6A16	28968	genome.wustl.edu	37	19	49813612	49813612	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014037.2	-1	validated	p.M191V	0.838	180	0%	89	13.5%	0	-	possibly_damaging(0.637)	tolerated(1)	neutral(0.223)	HMMPfam_SNF
SIGLEC8	27181	genome.wustl.edu	37	19	51961617	51961619	+	In_Frame_Del	DEL	GCA	GCA	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	GCA	GCA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014442.2	-1	validated	p.L8in_frame_del	0.633:0.759:0.808	-	-	-	-	-	-	-	-	-	NULL
ZNF816	125893	genome.wustl.edu	37	19	53453251	53453251	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031665.1	-1	validated	p.Y593H	0.508	487	0.2%	223	20.2%	6	33.3%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
LENG9	94059	genome.wustl.edu	37	19	54973909	54973909	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198988.1	-1	validated	p.S289	0.000	21	0%	23	47.8%	12	66.6%	-	-	-	NULL
BRSK1	84446	genome.wustl.edu	37	19	55812939	55812939	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032430.1	+1	validated	p.G246	0.635	10	0.000	9	0.778	0	-	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
BRSK1	84446	genome.wustl.edu	37	19	55817695	55817695	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032430.1	+1	validated	p.V656I	1.000	25	0%	13	46.2%	2	0%	probably_damaging(0.972)	tolerated(0.06)	deleterious(0.736)	NULL
NLRP13	126204	genome.wustl.edu	37	19	56423761	56423761	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176810.2	-1	validated	p.D474	0.000	189	0%	156	46.8%	0	-	-	-	-	NULL
ZNF471	57573	genome.wustl.edu	37	19	57036138	57036138	+	Silent	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020813.2	+1	validated	p.Y234	0.025	256	0%	214	15.9%	0	-	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ATRN	8455	genome.wustl.edu	37	20	3541429	3541429	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139321.2	+1	reviewed	p.Y442H	1.000	158	0%	81	18.5%	5	0%	probably_damaging(0.997)	tolerated(0.26)	deleterious(0.500)	superfamily_Galactose oxidase central domain
OTOR	56914	genome.wustl.edu	37	20	16730654	16730654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020157.2	+1	reviewed	p.T121M	1.000	89	0%	52	25%	0	-	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	superfamily_SH3
SNX5	27131	genome.wustl.edu	37	20	17932180	17932180	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014426.2	-1	reviewed	p.V191	1.000	197	0%	125	11.2%	23	8.6%	-	-	-	HMMPfam_Vps5
DZANK1	55184	genome.wustl.edu	37	20	18435999	18435999	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099407.1	-1	validated	p.C90	1.000	75	0%	43	16.3%	0	-	-	-	-	NULL
ASXL1	171023	genome.wustl.edu	37	20	30956920	30956920	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015338.5	+1	reviewed	p.T82	1.000	315	0.3%	210	13.8%	10	20%	-	-	-	NULL
AHCY	191	genome.wustl.edu	37	20	32878188	32878188	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000687.2	-1	reviewed	p.V308I	1.000	316	0%	156	48.1%	1689	50.6%	benign(0)	tolerated(0.22)	neutral(0.042)	HMMPfam_AdoHcyase,HMMPfam_AdoHcyase_NAD,superfamily_NAD(P)-binding Rossmann-fold domains,superfamily_Formate/glycerate dehydrogenase catalytic domain-like
FAM83C	128876	genome.wustl.edu	37	20	33875517	33875517	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178468.4	-1	validated	p.P355	0.067	26	0%	23	34.8%	0	-	-	-	-	NULL
C20orf152	140894	genome.wustl.edu	37	20	34568457	34568457	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080834.1	+1	predicted	p.V107A	0.748	138	0%	82	36.6%	0	-	benign(0.057)	deleterious(0.01)	neutral(0.409)	superfamily_cNMP_binding
ZSWIM1	90204	genome.wustl.edu	37	20	44511876	44511876	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080603.4	+1	validated	p.T215	0.000	91	0%	60	36.7%	9	33.3%	-	-	-	NULL
CTSA	5476	genome.wustl.edu	37	20	44521056	44521056	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000308.2	+1	reviewed	p.L144P	0.999	108	0%	51	54.9%	119	47.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_S10,superfamily_alpha/beta-Hydrolases
NFATC2	4773	genome.wustl.edu	37	20	50139979	50139979	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173091.2	-1	reviewed	p.A267	1.000	41	0%	20	65%	2	0%	-	-	-	NULL
MRAP	56246	genome.wustl.edu	37	21	33684268	33684268	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178817.3	+1	reviewed	p.E160	0.001	63	0%	29	48.3%	1	0%	-	-	-	NULL
SYNJ1	8867	genome.wustl.edu	37	21	34042665	34042665	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003895.3	-1	validated	p.T582A	0.998	114	0.9%	72	20.8%	0	-	benign(0.006)	tolerated(0.69)	neutral(0.002)	HMMSmart_SM00128,HMMPfam_Exo_endo_phos,superfamily_DNase I-like
KCNE1	3753	genome.wustl.edu	37	21	35821900	35821900	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000219.3	-1	reviewed	p.L13fs	0.001	-	-	-	-	-	-	-	-	-	HMMPfam_ISK_Channel
DOPEY2	9980	genome.wustl.edu	37	21	37602856	37602856	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005128.2	+1	validated	p.G592W	1.000	262	0%	85	50.6%	2	0%	possibly_damaging(0.646)	tolerated(0.07)	deleterious(0.545)	NULL
DSCAM	1826	genome.wustl.edu	37	21	41550865	41550865	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001389.3	-1	validated	p.A979V	0.999	71	0%	26	46.2%	0	-	benign(0.001)	deleterious(0)	neutral(0.445)	superfamily_Fibronectin type III
PRDM15	63977	genome.wustl.edu	37	21	43241454	43241454	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022115.3	-1	validated	p.R1043C	1.000	69	0%	48	45.8%	1	0%	unknown(0)	deleterious(0)	-	superfamily_SSF57667
FAM207A	85395	genome.wustl.edu	37	21	46363697	46363697	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058190.2	+1	predicted	p.S76	0.002	25	0%	13	53.8%	93	36.5%	-	-	-	NULL
DGCR8	54487	genome.wustl.edu	37	22	20073663	20073663	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022720.5	+1	validated	p.S59	1.000	42	0%	47	34%	13	15.3%	-	-	-	NULL
MED15	51586	genome.wustl.edu	37	22	20920922	20920922	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003891.1	+1	reviewed	p.P287S	1.000	50	0%	32	18.8%	102	33.3%	unknown(0)	-	-	NULL
SMARCB1	6598	genome.wustl.edu	37	22	24159109	24159109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003073.3	+1	reviewed	p.R261C	1.000	171	0%	126	16.7%	173	5.2%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_SNF5
SNRPD3	6634	genome.wustl.edu	37	22	24964111	24964111	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004175.3	+1	reviewed	p.G96S	0.998	249	0%	81	49.4%	187	53.4%	possibly_damaging(0.496)	deleterious(0.04)	deleterious(0.514)	superfamily_Sm-like ribonucleoproteins
NEFH	4744	genome.wustl.edu	37	22	29885828	29885828	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021076.3	+1	reviewed	p.P733	0.121	429	1.2%	286	15%	0	-	-	-	-	NULL
MYH9	4627	genome.wustl.edu	37	22	36716343	36716343	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002473.4	-1	reviewed	p.G312W	1.000	60	0%	31	16.1%	204	5.3%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
SUN2	25777	genome.wustl.edu	37	22	39132347	39132347	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015374.1	-1	validated	p.R693	0.987	27	0%	15	60%	103	51.4%	-	-	-	HMMPfam_Sad1_UNC
SUN2	25777	genome.wustl.edu	37	22	39146966	39146966	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015374.1	-1	validated	p.R121C	0.001	11	0%	13	53.8%	41	48.7%	possibly_damaging(0.598)	deleterious(0.03)	deleterious(0.572)	NULL
RPL3	6122	genome.wustl.edu	37	22	39710719	39710719	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000967.3	-1	reviewed	p.Y274C	1.000	27	0%	25	32%	8026	8.3%	possibly_damaging(0.607)	deleterious(0.02)	deleterious(0.594)	HMMPfam_Ribosomal_L3,superfamily_Translat_factor
TAB1	10454	genome.wustl.edu	37	22	39815598	39815598	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006116.2	+1	reviewed	p.K247fs	1.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00332,superfamily_Protein serine/threonine phosphatase 2C catalytic domain,HMMPfam_PP2C
MOV10L1	54456	genome.wustl.edu	37	22	50553599	50553599	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018995.2	+1	reviewed	p.Q395*	0.023	183	0%	92	38%	0	-	-	-	-	NULL
ARSE	415	genome.wustl.edu	37	X	2856148	2856148	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000047.2	-1	reviewed	p.V426A	0.975	140	0%	76	11.8%	3	0%	benign(0.123)	tolerated(0.23)	neutral(0.052)	HMMPfam_Sulfatase,superfamily_Alkaline_phosphatase_core
ARSF	416	genome.wustl.edu	37	X	3028181	3028181	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004042.3	+1	reviewed	p.G426	0.190	114	0%	72	47.2%	0	-	-	-	-	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like
WWC3	55841	genome.wustl.edu	37	X	10062228	10062228	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015691.3	+1	validated	p.L188	0.000	387	0%	184	12.5%	5	0%	-	-	-	NULL
SH3KBP1	30011	genome.wustl.edu	37	X	19560129	19560129	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031892.2	-1	reviewed	p.A602	0.535	167	0%	63	34.9%	9	77.7%	-	-	-	NULL
CXorf23	256643	genome.wustl.edu	37	X	19948035	19948035	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198279.3	-1	validated	p.C629*	0.160	812	0%	462	19.3%	2	0%	-	-	-	NULL
NR0B1	190	genome.wustl.edu	37	X	30322856	30322856	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000475.4	-1	reviewed	p.T418M	0.878	260	0%	188	11.7%	0	-	benign(0.079)	tolerated(0.29)	neutral(0.035)	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
CXorf21	80231	genome.wustl.edu	37	X	30578219	30578219	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025159.2	-1	validated	p.Q85R	0.114	464	0%	254	11.4%	0	-	benign(0.049)	tolerated(0.38)	neutral(0.021)	NULL
CXorf38	159013	genome.wustl.edu	37	X	40496266	40496266	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144970.2	-1	validated	p.I205K	1.000	104	1%	75	29.3%	5	40%	probably_damaging(0.958)	tolerated(0.99)	neutral(0.402)	NULL
MED14	9282	genome.wustl.edu	37	X	40513706	40513706	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004229.3	-1	reviewed	p.I1401V	1.000	360	0%	217	12.4%	10	20%	benign(0.003)	tolerated(0.55)	neutral(0.007)	NULL
USP9X	8239	genome.wustl.edu	37	X	41055854	41055855	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039590.2	+1	reviewed	p.R1368fs	0.999:1.000	-	-	-	-	-	-	-	-	-	NULL
CASK	8573	genome.wustl.edu	37	X	41419048	41419048	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003688.3	-1	reviewed	p.Q574R	1.000	69	0%	54	24.1%	10	0%	benign(0.332)	tolerated(0.53)	neutral(0.111)	superfamily_SH3,superfamily_PDZ
SLC38A5	92745	genome.wustl.edu	37	X	48320424	48320424	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033518.2	-1	validated	p.C247Y	1.000	177	0%	56	17.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Aa_trans
WDR13	64743	genome.wustl.edu	37	X	48458737	48458737	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017883.4	+1	reviewed	p.R185Q	1.000	97	0%	51	9.8%	297	0%	possibly_damaging(0.657)	tolerated(0.28)	neutral(0.263)	HMMSmart_SM00320,superfamily_WD40 repeat-like
WDR45	11152	genome.wustl.edu	37	X	48932827	48932827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007075.3	-1	reviewed	p.R315H	0.998	79	0%	35	31.4%	116	0%	possibly_damaging(0.824)	tolerated(0.29)	neutral(0.341)	superfamily_WD40_like
HUWE1	10075	genome.wustl.edu	37	X	53578035	53578035	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031407.4	-1	reviewed	p.R3071H	1.000	182	0%	122	34.4%	29	100%	probably_damaging(0.973)	deleterious(0.02)	deleterious(0.798)	NULL
FGD1	2245	genome.wustl.edu	37	X	54492141	54492141	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004463.2	-1	reviewed	p.I495	1.000	134	0%	97	12.4%	3	0%	-	-	-	HMMPfam_RhoGEF,HMMSmart_RhoGEF,superfamily_DH-domain
MAGEH1	28986	genome.wustl.edu	37	X	55479212	55479212	+	Silent	SNP	C	C	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014061.3	+1	reviewed	p.I135	0.021	161	0%	67	40.3%	4	0%	-	-	-	HMMPfam_MAGE
TAF1	6872	genome.wustl.edu	37	X	70607239	70607239	+	Silent	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.Q805	1.000	522	0%	232	12.9%	2	50%	-	-	-	NULL
TAF1	6872	genome.wustl.edu	37	X	70608190	70608190	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.R864Q	1.000	529	0.2%	255	40.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TAF1	6872	genome.wustl.edu	37	X	70617187	70617187	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.R1184H	0.995	285	0%	157	49%	9	100%	probably_damaging(0.992)	tolerated(0.07)	deleterious(0.766)	NULL
OGT	8473	genome.wustl.edu	37	X	70787446	70787446	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181672.2	+1	reviewed	p.P896S	0.997	132	0%	72	47.2%	39	0%	probably_damaging(0.994)	tolerated(0.92)	neutral(0.452)	NULL
MIR374A	442919	genome.wustl.edu	37	X	73507125	73507125	+	RNA	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000362298	-1	known	NULL	0.974	396	0.3%	303	15.8%	0	-	-	-	-	-
CYLC1	1538	genome.wustl.edu	37	X	83128320	83128320	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021118.1	+1	provisional	p.D202Y	0.000	313	0%	218	17%	0	-	unknown(0)	tolerated(0.22)	-	NULL
CPXCR1	53336	genome.wustl.edu	37	X	88008595	88008595	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033048.5	+1	validated	p.E60	0.005	207	0%	139	10.1%	0	-	-	-	-	NULL
DIAPH2	1730	genome.wustl.edu	37	X	96354692	96354692	+	Splice_Site	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006729.4	+1	reviewed	e20-1	1.000	177	0.6%	84	46.4%	0	-	-	-	-	-
CLDN2	9075	genome.wustl.edu	37	X	106171872	106171872	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020384.3	+1	reviewed	p.W138C	1.000	475	0%	332	40.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PMP22_Claudin
TMEM164	84187	genome.wustl.edu	37	X	109247174	109247174	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032227.3	+1	validated	p.R58W	1.000	116	0%	67	14.9%	2	50%	benign(0.002)	tolerated(0.07)	neutral(0.319)	NULL
AMOT	154796	genome.wustl.edu	37	X	112024279	112024279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113490.1	-1	reviewed	p.R770W	1.000	513	0%	214	44.9%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
UBE2A	7319	genome.wustl.edu	37	X	118715533	118715533	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003336.2	+1	reviewed	p.F72Y	1.000	323	0%	166	12.7%	44	0%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
CUL4B	8450	genome.wustl.edu	37	X	119668439	119668439	+	Silent	SNP	A	A	G	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003588.3	-1	reviewed	p.G739	0.991	536	0%	373	20.4%	11	81.8%	-	-	-	HMMPfam_Cullin,superfamily_Cullin homology domain
BCORL1	63035	genome.wustl.edu	37	X	129190003	129190003	+	Silent	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021946.3	+1	reviewed	p.D1676	0.266	291	0%	150	52.7%	2	100%	-	-	-	NULL
IGSF1	3547	genome.wustl.edu	37	X	130417102	130417102	+	Silent	SNP	G	G	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001555.4	-1	reviewed	p.S268	0.586	404	0%	220	10.9%	0	-	-	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
GPC3	2719	genome.wustl.edu	37	X	132833930	132833930	+	Missense_Mutation	SNP	G	G	C	rs122453121		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004484.3	-1	reviewed	p.R387G	1.000	282	0%	204	49.5%	0	-	probably_damaging(0.971)	deleterious(0.02)	deleterious(0.796)	HMMPfam_Glypican
RBMX	27316	genome.wustl.edu	37	X	135961586	135961589	+	Frame_Shift_Del	DEL	TGTT	TGTT	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	TGTT	TGTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002139.3	-1	reviewed	p.M1fs	1.000	-	-	-	-	-	-	-	-	-	NULL
PASD1	139135	genome.wustl.edu	37	X	150832669	150832669	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173493.2	+1	reviewed	p.S307L	0.000	208	0%	144	18.8%	0	-	possibly_damaging(0.873)	deleterious(0.01)	deleterious(0.745)	NULL
NSDHL	50814	genome.wustl.edu	37	X	152031269	152031269	+	Splice_Site	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001129765.1	+1	reviewed	e4+1	0.994	280	0%	158	15.8%	0	-	-	-	-	-
ATP2B3	492	genome.wustl.edu	37	X	152821586	152821586	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001344.2	+1	reviewed	p.A714fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Calcium ATPase transmembrane domain M
TKTL1	8277	genome.wustl.edu	37	X	153553701	153553701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012253.3	+1	validated	p.R445Q	0.998	330	0%	202	17.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Transket_pyr,superfamily_Thiamin diphosphate-binding fold (THDP-binding)
PLXNA3	55558	genome.wustl.edu	37	X	153700940	153700940	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A060-01	TCGA-AX-A060-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017514.3	+1	reviewed	p.T1843M	0.703	139	0%	82	12.2%	15	0%	possibly_damaging(0.943)	tolerated(0.11)	deleterious(0.659)	NULL
