Table 2.
Enrichment analysis of differentially methylated (DM) sites for genomic features.
| Genomic region |
#DM sites | DM Rate |
#Assay sites (after filtering) |
Assay Rate (after filtering) |
Corrected P-value |
Status |
|---|---|---|---|---|---|---|
| Enhancer | 487 | 52% | 93053 | 21% | 2.20E-16 | Enriched |
| No enhancer | 442 | 48% | 353903 | 79% | 2.20E-16 | Depleted |
| Island | 367 | 40% | 287941 | 64% | 2.20E-16 | Depleted |
| No island | 562 | 60% | 159015 | 36% | 2.20E-16 | Enriched |
| Genic | 653 | 70% | 336801 | 75% | 4.50E-04 | Depleted |
| Intergenic | 276 | 30% | 110155 | 25% | 4.50E-04 | Enriched |
| Position within a gene | ||||||
| TSS1500 | 55 | 6% | 62471 | 14% | 6.27E-15 | Depleted |
| TSS200 | 28 | 3% | 48681 | 11% | 2.20E-16 | Depleted |
| 5’UTR | 91 | 10% | 38707 | 9% | N.S | |
| 1st Exon | 18 | 2% | 21436 | 5% | 7.03E-06 | Depleted |
| Body | 418 | 45% | 149763 | 34% | 4.62E-13 | Enriched |
| 3’UTR | 43 | 5% | 15743 | 4% | N.S | |
| Position within a CpG island | ||||||
| N_Shore | 103 | 11% | 57319 | 13% | N.S | |
| N_Shelf | 48 | 5% | 22449 | 5% | N.S | |
| Island | 94 | 10% | 143319 | 32% | 2.20E-16 | Depleted |
| S_Shore | 81 | 9% | 44754 | 10% | N.S | |
| S_Shelf | 41 | 4% | 20100 | 4% | N.S | |