Table 6.
IBD DMPs previously identified to be differentially methylated in both CeD duodenal epithelia and immune fractions.
| CpG | Nearest gene | Mean Control | Mean IBD | Delta Beta | FDR IBD | FDR CeD |
|---|---|---|---|---|---|---|
| Epithelial fraction | ||||||
| cg00403478 | HLA-DPA1 | 6.2E-01 | 4.6E-01 | −0.30 | 3.9E-04 | 7.51E-03 |
| cg00676801 | STAT1 | 7.8E-01 | 6.7E-01 | −0.38 | 9.7E-05 | 1.40E-02 |
| cg02181920 | TAP1 | 5.2E-01 | 4.0E-01 | −0.22 | 2.2E-06 | 1.65E-02 |
| cg02286081 | HLA-DPB1 | 7.9E-01 | 6.6E-01 | −0.27 | 1.2E-02 | 1.84E-02 |
| cg06471536 | PREP | 5.5E-01 | 4.4E-01 | −0.17 | 1.4E-09 | 3.76E-02 |
| cg07839457 | NLRC5 | 5.5E-01 | 3.3E-01 | −0.25 | 6.6E-12 | 1.71E-02 |
| cg08735211 | HLA-DMA | 7.5E-01 | 5.9E-01 | −0.31 | 2.8E-06 | 3.24E-02 |
| cg09321817 | HLA-DPA1 | 7.4E-01 | 4.8E-01 | −0.38 | 7.3E-07 | 7.51E-03 |
| Immune fraction | ||||||
| cg01829342 | FRMD6 | 4.4E-01 | 5.5E-01 | 0.19 | 1.3E-03 | 3.45E-02 |
| cg01971120 | RNU5 F-1 | 2.5E-01 | 3.7E-01 | 0.20 | 1.1E-11 | 1.93E-02 |
| cg01977473 | GRAMD2B | 3.0E-01 | 4.1E-01 | 0.12 | 6.3E-13 | 3.74E-02 |
| cg02360367 | SKI | 3.5E-01 | 4.8E-01 | 0.11 | 1.3E-11 | 9.49E-03 |
| cg02909176 | ATP11A | 3.3E-01 | 4.5E-01 | 0.13 | 1.0E-10 | 1.07E-02 |
| cg05364072 | MAP7D1 | 5.2E-01 | 6.3E-01 | 0.22 | 5.0E-06 | 1.86E-02 |
| cg07843390 | GNG7 | 2.9E-01 | 4.0E-01 | 0.16 | 1.5E-12 | 4.04E-02 |
| cg09558069 | S100A5 | 3.4E-01 | 4.4E-01 | 0.13 | 3.7E-11 | 4.38E-02 |
| cg09670127 | BCL11A | 3.3E-01 | 4.3E-01 | 0.13 | 3.0E-07 | 2.56E-02 |
| cg09799714 | PDZD3 | 2.4E-01 | 3.5E-01 | 0.15 | 2.4E-14 | 1.44E-02 |
| cg10331073 | APBB1IP | 2.7E-01 | 3.9E-01 | 0.10 | 1.6E-07 | 4.32E-02 |
| cg14997942 | DNAJC1 | 3.3E-01 | 4.6E-01 | 0.23 | 1.1E-11 | 1.97E-02 |
| cg15876825 | VGLL4 | 3.9E-01 | 5.3E-01 | 0.11 | 6.9E-09 | 4.24E-02 |
| cg15924102 | LINC01132 | 2.9E-01 | 4.3E-01 | 0.13 | 5.2E-14 | 3.81E-02 |
| cg16312609 | MIR4708 | 2.8E-01 | 3.9E-01 | 0.17 | 1.1E-13 | 2.85E-02 |
| cg17292100 | SPAG1 | 2.5E-01 | 3.5E-01 | 0.12 | 1.3E-13 | 2.85E-02 |
| cg17980364 | TMEM135 | 2.8E-01 | 3.9E-01 | 0.12 | 1.2E-17 | 1.46E-02 |
| cg18423737 | SMAD7 | 5.6E-01 | 6.9E-01 | 0.13 | 8.6E-10 | 3.00E-02 |
| cg18556822 | NOSTRIN | 2.4E-01 | 3.6E-01 | 0.18 | 1.7E-15 | 4.88E-03 |
| cg19697512 | PPCDC | 3.9E-01 | 5.2E-01 | 0.15 | 7.7E-07 | 4.24E-02 |
| cg19794481 | MIR141 | 3.1E-01 | 4.3E-01 | 0.12 | 2.3E-12 | 3.18E-02 |
| cg20059312 | NGEF | 3.7E-01 | 4.9E-01 | 0.10 | 1.1E-15 | 4.59E-02 |
| cg20555562 | TEX29 | 2.9E-01 | 4.2E-01 | 0.15 | 8.6E-08 | 2.79E-02 |
| cg20859933 | ZBTB44 | 3.4E-01 | 4.6E-01 | 0.13 | 1.6E-10 | 1.86E-02 |
| cg21646082 | CEP85 | 3.1E-01 | 4.2E-01 | 0.11 | 3.2E-11 | 4.77E-02 |
| cg22601415 | ANK3 | 3.6E-01 | 4.9E-01 | 0.11 | 7.6E-09 | 4.83E-02 |
| cg22659049 | LIMCH1 | 4.3E-01 | 5.9E-01 | 0.13 | 1.7E-03 | 4.24E-02 |
| cg24216990 | GUCA1A | 2.5E-01 | 3.5E-01 | 0.15 | 1.4E-15 | 3.69E-02 |
| cg26049390 | RDH10 | 3.1E-01 | 4.2E-01 | 0.14 | 1.1E-04 | 2.16E-02 |
| cg26075184 | NKX2-3 | 2.2E-01 | 3.7E-01 | 0.15 | 5.4E-11 | 1.52E-02 |
| cg26094842 | VTI1A | 3.0E-01 | 4.0E-01 | 0.19 | 1.1E-09 | 2.16E-02 |