From: DNA methylation and smoking in Korean adults: epigenome-wide association study
Differentially methylated probes in relation to current smoking compared to never smoking (the Korean COPD cohort) | Gene (distance to genec) | Differentially expressed genes in relation to pack-years in lung tissue (Asan Biobank) | |||||||
---|---|---|---|---|---|---|---|---|---|
Differentially methylated probe | Â | Â | |||||||
 Chra | Probe | Coef b | P | Genomic features | CpG island |  | Transcript | Coef | P |
  1 | cg20388635 | −0.013 | 1.3E−05 | TSS200, promoter | Island | YTHDF2 | NM_001173128 | −0.019 | 0.047 |
  2 | cg22346073 | −0.056 | 5.1E−08 | 5′UTR | Shelf | CLASP1 | NM_015282 | 0.019 | 7.2E−04 |
cg19394739 | −0.012 | 3.5E−07 | Body, promoter | Shore | DGUOK | NM_080916 | −0.079 | 0.003 | |
cg09059267 | −0.099 | 4.2E−06 |  | Island | DNPEP (−15098) | NM_012100 | −0.021 | 0.037 | |
  3 | cg01870865 | −0.045 | 1.0E−05 | TSS200, promoter |  | TREX1 | NM_033629 | −0.018 | 0.023 |
cg19859270d | −0.027 | 1.0E−07 | 1st exon |  | GPR15 e | NM_005290 | 0.013 | 3.0E−04 | |
  5 | cg05575921d | −0.203 | 6.5E−13 | Body, enhancer | Shore | AHRR e | NM_001242412 | 0.004 | 0.047 |
cg14817490d | −0.078 | 4.7E−06 | Body, promoter, DHS |  | |||||
cg25648203d | −0.079 | 6.2E−07 | Body, enhancer, DHS |  | |||||
  6 | cg23164938 | −0.016 | 9.5E−06 | TSS1500 | Shore | ESR1 | NM_000125 | 0.005 | 0.012 |
  7 | cg05383910 | −0.042 | 2.1E−06 | 5′UTR, enhancer |  | ELMO1 e | NR_038121 | 0.017 | 0.031 |
cg20663219 | −0.054 | 9.4E−06 | Body, DHS | Shelf | STX1A | NM_001165903 | −0.003 | 0.045 | |
  10 | cg20723792 | −0.097 | 4.8E−10 | Body, enhancer, DHS |  | FAM53B | NM_014661 | 0.009 | 0.042 |
  11 | cg25426350 | −0.030 | 2.5E−06 | TSS200 |  | HPX | NM_000613 | −0.003 | 0.024 |
  13 | cg17058676 | −0.028 | 2.5E−06 | Body | Shore | CENPJ | NM_018451 | 0.003 | 0.035 |
  14 | cg16579351 | −0.017 | 1.2E−05 | Body |  | BRF1 | NM_001242788 | −0.012 | 0.041 |
  17 | cg13521620 | −0.052 | 1.2E−05 | 5′UTR | Shore | YPEL2 | NM_001005404 | 0.019 | 0.023 |
Differentially methylated region | Â | Â | Â | Â | |||||
 Chr | Region | #CpGs | FDR | Genomic features | CpG island |  |  |  |  |
  1 | 230415343–230416101 | 6 | 0.002 | 3′UTR | Island, shore | GALNT2 | NM_004481 | 0.033 | 0.018 |
  2 | 241975756–241976244 | 4 | 1.9E−06 | Body, promoter, DHS | island | SNED1 e | NM_001080437 | 0.017 | 0.014 |
  3 | 98250723–98251294 | 2 | 6.2E−07 | TSS200, 1st exon |  | GPR15 e | NM_005290 | 0.013 | 3.0E−04 |
  3 | 187870621–187871538 | 11 | 1.5E−05 | TSS1500, TSS200 | Shore, island | LPP e | NM_005578 | 0.019 | 0.018 |
  5 | 373378–374425 | 5 | 4.6E−17 | Body, enhancer | Shore, island | AHRR e | NM_001242412 | 0.004 | 0.047 |
  5 | 392920–393366 | 3 | 5.8E−08 | Body, promoter, DHS |  | ||||
  7 | 2768988–2770410 | 5 | 4.7E−06 | 3′UTR, enhancer |  | GNA12 e | NM_007353 | 0.022 | 0.019 |
  17 | 61511069–61511829 | 4 | 4.9E−04 | 3′UTR, body, enhancer | Shore, island | CYB561 | NM_001017916 | −0.056 | 0.005 |