Table 3. 20 DMPs with highest effect sizes
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)** | |||||||||
cg11303839 | chr7:75,405,967 | 84,519 | CCL26 | 10 | 5.1 × 10–12 | 4.0 × 10–6 | 4.0 × 10–4 | − 0.43 | 0.64 | 0.18 | 0.61 | 0.31 |
cg16307144 | chr19:38,704,933 | 14,590 | DPF1 | 6 | 4.7 × 10–11 | 3.6 × 10–5 | 0.012 | − 0.40 | 0.68 | 0.31 | 0.57 | 0.66 |
cg08670006 | chr14:56,738,739 | 154,092 | PELI2 | 66 | 3.6 × 10–11 | 2.8 × 10–5 | 1.5 × 10–3 | − 0.37 | 0.52 | 0.27 | 0.30 | 0.86 |
cg26189827 | chr7:40,338,925 | 11,044 | SUGCT | 45 | 2.3 × 10–12 | 1.8 × 10–6 | 2.1 × 10–3 | − 0.37 | 0.57 | 0.18 | 0.08 | 0.38 |
cg03606473 | chr3:102,846,710 | 1,035,074 | gene desert | NA | 1.1 × 10–10 | 8.2 × 10–5 | 7.4 × 10–5 | − 0.37 | 0.57 | 0.27 | 0.35 | 0.76 |
cg04025284 | chr14:60,636,610 | 336,907 | DHRS7 | 460 | 2.2 × 10–10 | 1.7 × 10–4 | 3.8 × 10–3 | − 0.37 | 0.79 | 0.68 | 0.80 | 0.90 |
cg25249713 | chr4:177,045,356 | 28,224 | WDR17 | 9 | 2.2 × 10–10 | 1.7 × 10–4 | 0.016 | − 0.37 | 0.78 | 0.35 | 0.88 | 0.83 |
cg10659908 | chr12:109,796,147 | 66,574 | LINC01486 | NA | 3.3 × 10–13 | 2.6 × 10–7 | 6.9 × 10–4 | − 0.36 | 0.70 | 0.30 | 0.85 | 0.54 |
cg07804660 | chr11:266,869 | 22,085 | gene desert | NA | 3.3 × 10–11 | 2.6 × 10–5 | 1.8 × 10–4 | − 0.36 | 0.72 | 0.40 | 0.80 | 0.79 |
cg24852319 | chr6:113,278,378 | 266,486 | gene desert | NA | 2.1 × 10–11 | 1.7 × 10–5 | 1.2 × 10–4 | − 0.36 | 0.71 | 0.36 | 0.55 | 0.83 |
cg27171156 | chr2:71,698,651 | 4367 | DYSF | 92 | 5.6 × 10–9 | 4.4 × 10–3 | 1.8 × 10–3 | − 0.36 | 0.61 | 0.31 | 0.11 | 0.79 |
cg27531927 | chr13:98,598,462 | 29,598 | gene desert | NA | 2.5 × 10–8 | 0.020 | 3.0 × 10–3 | − 0.36 | 0.61 | 0.27 | 0.23 | 0.74 |
cg09168806 | chr8:97,056,373 | 523 | gene desert | NA | 2.8 × 10–9 | 2.2 × 10–3 | 2.7 × 10–3 | − 0.35 | 0.61 | 0.30 | 0.24 | 0.75 |
cg01306824 | chr17:77,834,118 | 18,952 | gene desert | NA | 2.5 × 10–15 | 2.0 × 10–9 | 0.010 | − 0.35 | 0.63 | 0.50 | 0.67 | 0.94 |
cg01658895 | chr5:74,621,313 | 11,545 | gene desert | NA | 1.4 × 10–9 | 1.1 × 10–3 | 1.2 × 10–5 | − 0.35 | 0.63 | 0.42 | 0.76 | 0.84 |
cg02061660 | chr5:110,088,130 | 12,074 | SLC25A46 | 747 | 5.1 × 10–8 | 0.039 | 5.8 × 10–4 | − 0.35 | 0.68 | 0.40 | 0.70 | 0.84 |
cg09605880 | chr1:32,397,195 | 7131 | PTP4A2 | 1034 | 1.1 × 10–10 | 8.5 × 10–5 | 2.8 × 10–3 | − 0.34 | 0.51 | 0.21 | 0.47 | 0.52 |
cg12859373 | chr6:90,993,998 | 203,279 | BACH2 | 135 | 2.3 × 10–8 | 0.017 | 7.0 × 10–3 | − 0.34 | 0.54 | 0.10 | 0.24 | 0.14 |
cg14991316 | chr20:36,932,377 | 8 | BPI | 0 | 4.0 × 10–11 | 3.1 × 10–5 | 1.0 × 10–3 | − 0.34 | 0.67 | 0.12 | 0.92 | 0.06 |
cg19996026 | chr10:69,455,804 | 262,127 | CTNNA3 | 2 | 5.2 × 10–10 | 4.1 × 10–4 | 1.7 × 10–3 | − 0.34 | 0.67 | 0.35 | 0.66 | NA |