Table 1 DNA methylation sites significantly associated with the traits at p < 3.3 × 10−7, in a MOMENT meta-analyses of AD, ALS and PD. Chr—chromosome number; Probe—probe identification number as provided by Illumina; bp—base pair position in the genome; Gene—closest genes the probe is annotated to, based on distance to transcription starting site, following the method described elsewhere [28]; Orien—DNA strand orientation, F = forward, R = Reverse [28]; bMETA—effects sizes (increase (positive sign) or decrease (negative sign) of methylation between cases and control per standard deviation unit) of meta-analysis results; pMETA—p values of meta-analysis models; s.e.META—standard errors from meta-analysis; pMETA—p values from meta-analysis; Direction—direction of effect sizes, within each cohort (AUS, KCL, NL, SGPD, PEG, AIBL, respectively); I2—proportion of total variation in study estimates that is due to heterogeneity between the six cohorts in the meta-analysis [35]
Chr | Probe | bp | Gene | Orien | bMETA | s.e.META. | pMETA | Direction | I2 | Q | pQ |
|---|---|---|---|---|---|---|---|---|---|---|---|
6 | cg03546163 | 35686586 | FKBP5 | R | − 0.43 | 0.06 | 3.42 × 10−12 | – | 46.2 | 9.29 | 0.10 |
15 | cg26272088 | 98900110 | IGF1R | F | 1.39 | 0.20 | 5.74 × 10−12 | ++++++ | 0 | 2.11 | 0.83 |
2 | cg24166814 | 55840142 | – | F | − 0.83 | 0.13 | 5.60 × 10−11 | – | 36.8 | 7.91 | 0.16 |
22 | cg04431254 | 46288875 | TTC38 | F | − 1.44 | 0.25 | 1 × 0−8 | – | 10.4 | 5.58 | 0.35 |
4 | cg06690548 | 138241654 | SLC7A11 | R | 0.52 | 0.09 | 1.36 × 10−8 | ++++++ | 60.2 | 12.58 | 0.03 |
8 | cg14195992 | 47353350 | SPIDR | R | − 0.85 | 0.15 | 1.48 × 10−8 | – | 40.4 | 8.38 | 0.14 |
4 | cg17786255 | 107893233 | RP11-286E11.1; SGMS2 | R | − 0.62 | 0.11 | 3.45 × 10−8 | – | 37.9 | 8.05 | 0.15 |
12 | cg11881599 | 92420308 | RP11-693 J15.4; CLLU1OS;CLLU1 | R | 0.85 | 0.15 | 3.57 × 10−8 | ++++++ | 0 | 2.25 | 0.81 |
9 | cg13953978 | 129838509 | USP20 | F | 0.99 | 0.18 | 5.28 × 10−8 | ++++++ | 0 | 0.93 | 0.97 |
1 | cg17901584 | 54,888033 | RP11-67 L3.4; DHCR24 | F | 0.48 | 0.09 | 1.39 × 10−7 | +++++− | 73.2 | 18.69 | 2.20 × 10−3 |
6 | cg18120259 | 43926902 | – | F | 0.67 | 0.13 | 2.29 × 10−7 | ++++++ | 0 | 1.30 | 0.94 |
10 | cg26033520 | 72244313 | – | F | − 0.58 | 0.11 | 2.74 × 10−7 | – | 81.1 | 26.40 | 7.47 × 10−5 |