TABLE II.
Nine significant CpGs (FDR < 0.05) from the meta-analysis of asthma in relation to newborn methylation
| CpG* | chromosome:position | UCSC RefGene name | UCSC Known Gene† | Average methylation | OR‡ (CI) | P value | Direction§ |
|---|---|---|---|---|---|---|---|
| cg21486411 | Chr 11:77348243 | CLNS1A | CLNS1A | 0.089 | 1.13 (1.08-1.18) | 3.43E-07 | +?++++++ |
| cg16792002 | Chr 11:95788886 | MAML2 | Mir_548 | 0.840 | 0.95 (0.93-0.97) | 5.59E-07 | −−−−−−−+ |
| ch.11.109687686R | Chr 11:110182476 | 0.085 | 1.08 (1.05-1.11) | 7.06E-07 | +??+++++ | ||
| cg13427149 | Chr 1:217804379 | GPATCH2; SPATA17 | GPATCH2 | 0.063 | 1.19 (1.11-1.27) | 8.04E-07 | ++++++++ |
| cg17333211 | Chr 4:141294016 | SCOC | LOC100129858 | 0.074 | 1.13 (1.08-1.19) | 8.25E-07 | −+−+++++ |
| cg02331902 | Chr 5:90610303 | AK091866 | 0.089 | 1.12 (1.07-1.18) | 8.37E-07 | −−++++++ | |
| cg13289553 | Chr 5:32585524 | SUB1 | SUB1 | 0.085 | 1.14 (1.08-1.20) | 8.68E-07 | +++++++− |
| ch.6.1218502R | Chr 6:51250028 | 0.054 | 1.27 (1.15-1.39) | 9.32E-07 | +??+++++ | ||
| cg07156990 | Chr 14:102685678 | WDR20 | WDR20 | 0.930 | 0.87 (0.83-0.92) | 9.54E-07 | −++−−−−− |
OR, Odds ratio.
*
ch probes (ch.11.109687686R and ch.6.1218502R) have been reported to be cross-hybridizing, and thus UCSC Known Gene is intentionally left blank.
†
Annotation based on UCSC Known Gene also fills in the nearest gene within 10 MB.
‡
Odds ratio of having asthma for a 1% absolute increase in methylation. Adjusted for covariates and cell type.
§
For each cohort participating in the analysis, + indicates a positive direction of effect, − indicates a negative direction of effect, and ? indicates missing information for that CpG in a given cohort. Cohort order is as follows: ALSPAC, CHS, EDEN, Generation R, GOYA, MoBa1, MoBa2, and NEST.