Skip to main content

Table 1 Fifty-two CpG sites included in the epigenetic signature

From: Epigenetic signature of Gleason score and prostate cancer recurrence after radical prostatectomy

CpG ID Chr. Gene name Genetic location Epigenetic location Mean β Gleason ≤6 Mean β Gleason 8−10 Mean β difference Elastic Net coefficient
cg10145000 1     0.44 0.31 0.12 −0.0043
cg00043324 1     0.87 0.90 0.03 0.2022
cg00506866 2 RRM2 Body Island 0.16 0.11 0.04 −0.2591
cg02601249 2    S_Shore 0.80 0.62 0.17 −0.1426
cg15454811 2     0.82 0.65 0.17 −0.1904
cg09741917 2 VWA3B TSS1500 N_Shore 0.49 0.63 0.14 0.3933
cg13607230 2 MFSD9 Body N_Shore 0.43 0.56 0.13 0.5376
cg17353895 2 ANO7 3'UTR;Body   0.65 0.76 0.10 0.5339
cg05287437 3 GALNTL2 TSS1500   0.77 0.63 0.14 −1.5620
cg13333267 3 SEMA3F 5'UTR S_Shelf 0.48 0.59 0.11 0.0180
cg13320202 3 ATXN7 Body S_Shore 0.48 0.36 0.12 −0.0575
cg10523671 3 SLC15A2 TSS1500   0.45 0.62 0.17 0.3300
cg02034887 3 SLC15A2 TSS200   0.27 0.40 0.14 0.0982
cg05962239 3 MME 5'UTR;1stExon S_Shore 0.24 0.14 0.10 −0.2355
cg27473997 4 USP17 TSS200   0.71 0.55 0.17 −0.2529
cg13432241 4 KIAA0922 Body S_Shore 0.61 0.44 0.17 −0.4088
cg08415137 5     0.13 0.09 0.04 −0.0529
cg01106114 5 FOXI1 TSS1500 N_Shore 0.41 0.52 0.11 0.0330
cg20997710 7     0.47 0.30 0.17 −0.2326
cg03490567 7 URGCP 5'UTR;Body N_Shore 0.23 0.34 0.10 0.0660
cg10218605 7 PTPRN2 Body N_Shore 0.30 0.50 0.20 0.0037
cg00201595 8     0.82 0.78 0.04 −0.3187
cg08092111 8 RP1 Body S_Shore 0.72 0.57 0.16 −0.0906
cg26598831 8     0.63 0.42 0.21 −0.1777
cg06728098 8 MRPS28 Body N_Shore 0.12 0.10 0.02 −0.4359
cg17929627 10 MKI67 5'UTR Island 0.17 0.11 0.06 −2.2937
cg23656300 10     0.71 0.55 0.16 −0.0168
cg20809737 11 CPT1A Body   0.78 0.70 0.09 −0.7679
cg05280814 11    N_Shelf 0.55 0.73 0.18 0.8970
cg15401862 12 KCNMB4 3'UTR   0.87 0.80 0.07 −0.2301
cg02767665 12 TMEM132D Body S_Shore 0.63 0.45 0.18 −0.3594
cg22795345 13 ARHGEF7 Body Island 0.35 0.64 0.29 0.2448
cg14270002 13 ARHGEF7 Body Island 0.28 0.57 0.29 0.2159
cg24743156 14 CTAGE5 TSS1500;Body N_Shore 0.32 0.43 0.11 0.0997
cg25407064 15 EIF2AK4 TSS200 Island 0.04 0.03 0.01 −1.5429
cg12921171 15     0.53 0.65 0.12 0.5505
cg18054026 15 C15orf26 Body S_Shore 0.42 0.53 0.12 0.1548
cg11470399 16 PLK1 1stExon Island 0.14 0.11 0.03 −1.5771
cg04138181 16 PLK1 Body S_Shore 0.25 0.15 0.10 −1.1582
cg27106909 16 YPEL3 1stExon;5'UTR N_Shore 0.20 0.37 0.17 0.2890
cg06285575 16 ZNF267 Body S_Shelf 0.21 0.33 0.12 0.0053
cg09848947 16 FAM38A Body   0.77 0.66 0.11 −0.4029
cg06751612 16 FAM38A Body   0.86 0.76 0.11 −0.5474
cg10576459 17     0.89 0.79 0.10 −0.0067
cg01135464 17     0.33 0.57 0.24 0.7303
cg22438006 18    N_Shelf 0.66 0.49 0.18 −0.0625
cg07164161 18 KCNG2 Body S_Shore 0.53 0.42 0.11 −0.0296
cg09960641 19 LOC100128675 TSS1500   0.31 0.46 0.14 0.2864
cg25286393 19 NAPSA TSS1500   0.70 0.59 0.11 −0.0201
cg12551567 20 CDC25B 1stExon Island 0.10 0.08 0.02 −0.4047
cg07944494 21    Island 0.94 0.96 0.02 0.1070
cg07260325 X     0.74 0.66 0.08 −0.1695