Table 3.
Gene set enrichment analysis of genes with at least one DMR in the promoter
| Gene set name | Number of genes in gene set (K) | Number of genes in overlap (k) | k/K | False Discovery Rate q value |
|---|---|---|---|---|
| PILON_KLF1_TARGETS_DN | 1972 | 107 | 0.0543 | 2.01 × 10–19 |
| YOSHIMURA_MAPK8_TARGETS_UP | 1305 | 73 | 0.0559 | 5.87 × 10–14 |
| BOQUEST_STEM_CELL_UP | 260 | 31 | 0.1192 | 1.14 × 10–13 |
| BENPORATH_NANOG_TARGETS | 988 | 61 | 0.0617 | 1.70 × 10–13 |
| LIM_MAMMARY_STEM_CELL_UP | 489 | 40 | 0.0818 | 1.73 × 10–12 |
| WONG_ADULT_TISSUE_STEM_MODULE | 721 | 46 | 0.0638 | 9.24 × 10–11 |
| PASINI_SUZ12_TARGETS_DN | 315 | 28 | 0.0889 | 9.54 × 10–10 |
| BENPORATH_SOX2_TARGETS | 734 | 43 | 0.0586 | 4.40 × 10–9 |
| BENPORATH_ES_WITH_H3K27ME3 | 1118 | 53 | 0.0474 | 5.27 × 10–8 |
| ZHANG_TLX_TARGETS_60HR_UP | 293 | 24 | 0.0819 | 9.01 × 10–8 |
| DANG_BOUND_BY_MYC | 1103 | 51 | 0.0462 | 2.09 × 10–7 |
DMR differentially methylated region