TABLE IV.
Thirty-four CpGs annotated to 13 genes with more than 1 significant CpG (FDR < 0.05) from the meta-analysis of asthma in relation to childhood methylation
| CpG | chromosome:position | UCSC RefGene name | UCSC Known gene* | P value | Average methylation | OR† (CI) | Direction‡ |
|---|---|---|---|---|---|---|---|
| cg13066938 | Chr 1: 6341140 | ACOT7 | ACOT7 | 1.67E-05 | 0.682 | 0.91 (0.88-0.95) | −−+?−−+−− |
| cg21220721 | Chr 1: 6341230 | ACOT7 | ACOT7 | 1.02E-08 | 0.763 | 0.94 (0.92-0.96) | −−+−−−−−− |
| cg09249800 | Chr 1: 6341287 | ACOT7 | ACOT7 | 1.19E-08 | 0.916 | 0.88 (0.84-0.92) | ???−−−?−− |
| cg11699125 | Chr 1: 6341327 | ACOT7 | ACOT8 | 7.54E-10 | 0.799 | 0.90 (0.87-0.93) | −−+−−−−−− |
| cg00043800 | Chr 2: 74612144 | LOC100189589 | LOC100189589 | 1.32E-05 | 0.585 | 0.91 (0.87-0.95) | −−−−−++−− |
| cg17988187 | Chr 2: 74612222 | LOC100189589 | LOC100189590 | 1.21E-06 | 0.699 | 0.90 (0.86-0.94) | −−+?−−+−− |
| cg01310029 | Chr 3: 3152374 | IL5RA | IL5RA | 4.18E-06 | 0.744 | 0.89 (0.85-0.94) | −−−?−−+−− |
| cg10159529 | Chr 3: 3152530 | IL5RA | IL5RA | 4.48E-06 | 0.736 | 0.90 (0.86-0.94) | −−−?−−−− |
| cg07410597 | Chr 3: 66404129 | SLC25A26 | LRIG1 | 2.70E-07 | 0.773 | 0.88 (0.84-0.93) | −−+−−−+−− |
| cg04217850 | Chr 3: 66428294 | SLC25A26 | LR1G2 | 2.35E-06 | 0.747 | 0.88 (0.83-0.93) | −−+−−−−−− |
| cg15304012 | Chr 6: 166876490 | RPS6KA2 | RPS6KA2 | 1.86E-05 | 0.697 | 1.08 (1.04-1.13) | +++++++++ |
| cg19851574 | Chr 6: 167178233 | RPS6KA2 | RPS6KA2 | 3.42E-06 | 0.671 | 0.95 (0.94-0.97) | −−+−−−−−− |
| cg03329755 | Chr 6: 167189272 | RPS6KA2 | RPS6KA2 | 6.14E-06 | 0.818 | 0.91 (0.88-0.95) | −++−−−−−− |
| cg05184016 | Chr 7: 149543136 | ZNF862 | BC045757 | 2.74E-08 | 0.817 | 0.85 (0.80-0.90) | −−+−−−−−− |
| cg07970948 | Chr 7: 149543165 | ZNF862 | BC045757 | 6.39E-08 | 0.771 | 0.91 (0.88-0.94) | −−−+−−+−− |
| cg06558622 | Chr 7: 149543177 | ZNF862 | BC045757 | 3.39E-09 | 0.818 | 0.88 (0.85-0.92) | −−−−−−−−− |
| cg24576940 | Chr 7: 150648283 | KCNH2 | KCNH2 | 1.83E-05 | 0.848 | 0.87 (0.81-0.93) | −−−−−−−−− |
| cg23147443 | Chr 7: 150649655 | KCNH2 | KCNH2 | 1.83E-06 | 0.842 | 0.89 (0.85-0.93) | ???−−−?−− |
| cg18666454 | Chr 7: 150651937 | KCNH2 | KCNH2 | 1.46E-07 | 0.761 | 0.89 (0.86-0.93) | −−−−−−−−− |
| cg13850063 | Chr 9: 138362321 | AK096249 | 5.49E-08 | 0.819 | 0.78 (0.71-0.85) | −−+?−−−−− | |
| cg14011077 | Chr 9: 138362327 | AK096249 | 7.02E-09 | 0.797 | 0.86 (0.82-0.90) | −−−?−−−−− | |
| cg15700636 | Chr 11: 57156050 | PRG2 | PRG2 | 2.35E-07 | 0.746 | 0.89 (0.85-0.93) | −−+−−−−−− |
| cg08773180 | Chr 11: 57157607 | PRG2 | PRG2 | 1.77E-07 | 0.741 | 0.89 (0.85-0.93) | −−+−−−+−− |
| cg12819873 | Chr 11: 57157632 | PRG2 | PRG2 | 9.55E-06 | 0.760 | 0.90 (0.86-0.94) | −−−−−−+−− |
| cg16409452 | Chr 14: 100610186 | EVL | AX747103 | 4.89E-07 | 0.770 | 0.91 (0.87-0.94) | −−+−−−−−− |
| cg14084609 | Chr 14: 100610407 | EVL | AX747103 | 2.96E-09 | 0.780 | 0.89 (0.85-0.92) | −−−−−−−−− |
| cg18550847 | Chr 14: 100610570 | EVL | AX747103 | 7.10E-07 | 0.730 | 0.91 (0.88-0.94) | −−+?−−−−− |
| cg08640475 | Chr 16: 85551478 | KIAA0182 | 2.36E-06 | 0.815 | 0.92 (0.89-0.95) | −−+−−−−−− | |
| cg10099827 | Chr 16: 85551514 | KIAA0182 | 1.32E-06 | 0.808 | 0.92 (0.89-0.95) | −−−−−−−−− | |
| cg08940169 | Chr 16: 88540241 | ZFPM1 | ZFPM1 | 2.93E-07 | 0.778 | 0.91 (0.87-0.94) | −−−−−−+−− |
| cg04983687 | Chr 16: 88558223 | ZFPM1 | ZFPM1 | 1.33E-10 | 0.744 | 0.93 (0.90-0.95) | −−−−−−−−− |
| cg25173129 | Chr 17: 56269410 | EPX | EPX | 8.09E-07 | 0.753 | 0.88 (0.84-0.93) | −−+−−−+−− |
| cg02970679 | Chr 17: 56269818 | EPX | EPX | 9.99E-07 | 0.776 | 0.88 (0.83-0.92) | −−−−−−+−− |
| cg17374802 | Chr 17: 56270828 | EPX | EPX | 2.06E-06 | 0.713 | 0.90 (0.86-0.94) | −−−?−−+−− |
OR, Odds ratio.
*
Annotation based on UCSC Known Gene also fills in 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, + indicates a positive direction of effect, − indicates a negative direction of effect, and ? indicates missing information for that CpG. Cohort order is as follows: BAMSE EpiGene, BAMSE MeDALL, CHOP, GALAII, ICAC, NFBC1986, PIAMA, RAINE, and STOPPA.