Table 2.
Altered CGIs in colorectal cancer and colorectal adenoma
| UCSC CGI | UCSC CGI name | CTCF binding site | Δβ value (CRC-control) | Δβ value (CRA-control) | Genes within region | Gene promoter-associated CGI |
|---|---|---|---|---|---|---|
| chr5:140750050-140750264 | CpG 16 | chr5:140748521-140750945 | 0.157* | 0.200 | PCDHGA1, PCDHGA2, PCDHGA3, PCDHGA4, PCDHGA5, PCDHGB1, PCDHGB2, PCDHGB3 | PCDHGB3 |
| chr5:140855386-140856620 | CpG 95 | chr5:140854218-140856648 | 0.200* | 0.105 | PCDHGA1, PCDHGA10, PCDHGA11, PCDHGA12, PCDHGA2, PCDHGA3, PCDHGA4, PCDHGA5, PCDHGA6, PCDHGA7, PCDHGA8, PCDHGA9, PCDHGB1, PCDHGB2, PCDHGB3, PCDHGB4, PCDHGB5, PCDHGB6, PCDHGB7, PCDHGC3 | PCDHGC3 |
| chr5:140857864-140858065 | CpG 19 | chr5:140856882-140859319 | 0.310 | 0.259 | PCDHGA1, PCDHGA10, PCDHGA11, PCDHGA12, PCDHGA2, PCDHGA3, PCDHGA4, PCDHGA5, PCDHGA6, PCDHGA7, PCDHGA8, PCDHGA9, PCDHGB1, PCDHGB2, PCDHGB3, PCDHGB4, PCDHGB5, PCDHGB6, PCDHGB7, PCDHGC3 | – |
| chr5:140864527-140864748 | CpG 22 | – | 0.435 | 0.277 | PCDHGA1, PCDHGA10, PCDHGA11, PCDHGA12, PCDHGA2, PCDHGA3, PCDHGA4, PCDHGA5, PCDHGA6, PCDHGA7, PCDHGA8, PCDHGA9, PCDHGB1, PCDHGB2, PCDHGB3, PCDHGB4, PCDHGB5, PCDHGB6, PCDHGB7, PCDHGC3, PCDHGC4 | PCDHGC4 |
| chr5:140892914-140893189 | CpG 20 | chr5:140890901-140893291 | 0.302 | 0.200 | – | – |
| chr5:140891594-140893806 |
Note: CGI CpG island, CRC colorectal cancer, CRA colorectal adenoma. *Nominal threshold (p value < 0.05). CpG 16, 95, 19, 22 and 20 correspond to UCSC CGI name