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Table 2 Most significant DMPs in full analysis that were also significant in the paired sub-analysis

From: Epigenetic adaptations of the masticatory mucosa to periodontal inflammation

Probe ID Chr:Position (hg19) Distance to nearest significant DMP (bp) Gene Symbol Median TPM* p (full analysis) q (full analysis) padj (paired analysis) β (full analysis) Raw beta values (mean)
Uninflamed (n = 48) Inflamed (n = 48) pGECs (n = 5) Blood (n = 69)**
cg23278359 chr8:142,439,128 131 PTP4A3 78 2.2 × 10–18 1.8 × 10–12 0.01 − 0.18 0.87 0.8 0.8 0.93
cg17282085 chr3:77,684,050 455,069 ROBO2 239 6.2 × 10–18 4.9 × 10–12 8.8 × 10–3 − 0.14 0.81 0.48 0.55 0.57
cg06819431 chr1:153,605,367 25,710 CHTOP 701 6.6 × 10–18 5.2 × 10–12 1.3 × 10–4 − 0.16 0.89 0.78 0.89 0.93
cg25428009 chr8:126,304,221 194,357 NSMCE2 263 7.0 × 10–18 5.5 × 10–12 1.0 × 10–4 − 0.05 0.89 0.69 0.88 0.67
cg24469152 chr20:62,378,611 7815 ZBTB46 29 8.5 × 10–18 6.7 × 10–12 0.03 − 0.11 0.87 0.88 0.86 0.96
cg06405792 chr19:36,483,062 60,585 SDHAF1 153 1.8 × 10–17 1.4 × 10–11 7.1 × 10–4 − 0.13 0.88 0.81 0.89 0.92
cg15834202 chr5:58,865,918 38,967 PDE4D 79 3.1 × 10–17 2.4 × 10–11 4.4 × 10–5 − 0.28 0.77 0.45 0.65 0.61
cg27288968 chr21:34,106,765 116,334 PAXBP1 310 3.2 × 10–17 2.6 × 10–11 9.5 × 10–4 − 0.27 0.82 0.64 0.82 0.87
cg17835169 chr5:149,281,308 58,550 PDE6A 16 3.3 × 10–17 2.6 × 10–11 1.0 × 10–3 − 0.19 0.88 0.6 0.93 0.75
cg21500126 chr8:119,372,894 186,008 SAMD12 214 4.9 × 10–17 3.9 × 10–11 6.7 × 10–5 − 0.24 0.79 0.6 0.8 0.84
cg02967821 chr8:30,582,335 18,888 GSR 671 4.9 × 10–17 3.9 × 10–11 8.7 × 10–5 − 0.23 0.89 0.79 0.81 0.91
cg17423032 chr5:31,755,265 23,874 PDZD2 1696 1.9 × 10–16 1.5 × 10–10 3.6 × 10–4 − 0.15 0.89 0.77 0.91 0.93
cg19962349 chr5:43,534,107 69,246 PAIP1 1157 2.3 × 10–16 1.8 × 10–10 2.0 × 10–5 − 0.25 0.67 0.5 0.75 0.74
cg16084117 chr20:47,188,436 49,123 TRNA_Pseudo NA 3.3 × 10–16 2.6 × 10–10 2.8 × 10–3 − 0.14 0.91 0.78 0.92 NA
cg01379678 chr18:32,397,156 6921 DTNA 11 4.1 × 10–16 3.2 × 10–10 1.2 × 10–5 − 0.17 0.85 0.72 0.88 0.93
cg11022756 chr4:170,540,250 6371 CLCN3 2771 6.0 × 10–16 4.8 × 10–10 6.9 × 10–3 − 0.14 0.83 0.75 0.85 0.92
cg00414647 chr19:40,781,453 57,065 AKT2 2076 7.7 × 10–16 6.0 × 10–10 0.01 − 0.06 0.9 0.76 0.92 0.82
cg27597264 chr6:8,086,870 232 SCARNA27 NA 9.1 × 10–16 7.1 × 10–10 1.5 × 10–4 − 0.20 0.85 0.7 0.87 0.89
cg27168410 chr19:41,629,018 1528 CYP2F1 41 9.3 × 10–16 7.4 × 10–10 6.2 × 10–3 − 0.21 0.88 0.71 0.89 0.9
cg16302962 chr8:131,124,760 187,033 ASAP1 623 9.7 × 10–16 7.7 × 10–10 0.02 − 0.23 0.85 0.62 0.92 0.84
  1. 20 most significant DMPs from the full analysis that also showed a significant association in the paired sub-analysis. p Values from paired analysis are Bonferroni-corrected for 15,507 tests. ∆β-values are adjusted according to our intercept method [16]. *mRNA-sequencing in healthy keratinized oral mucosa with 16mio reads/sample [12]. **downloaded from GSE123914 [54]. DMP = differentially methylated position, bp = basepairs, TPM = transcripts per million, pGECs = primary gingival epithelial cells