Table 2.
Numbers of differentially methylated CpG sites in LM and LMS compared to normal metrium (NM) tissues.
| Feature | # of CpG probes | Leiomyoma (LM) | Leiomyosarcoma (LMS) | ||
|---|---|---|---|---|---|
| Hypermethylated (Δβ > 0.2) | Hypomethylated (Δβ < −0.2) | Hypermethylated (Δβ > 0.2) | Hypomethylated (Δβ < −0.2) | ||
| Gene feature groups | |||||
| Intergenic | 115,382 | 4,910 (4.3%) | 2,776 (2.4%) | 4,533 (3.9%) | 33,513 (29.0%) |
| TSS1500 | 67,542 | 1,841 (2.7%) | 1,059 (1.6%) | 1,614 (2.4%) | 9,741 (14.4%) |
| TSS200 | 50,513 | 877 (1.7%) | 415 (0.8%) | 1,043 (2.1%) | 3,625 (7.2%) |
| 5′UTR and 1st exon | 63,745 | 1,504 (2.4%) | 913 (1.4%) | 2,025 (3.2%) | 6,383 (10.0%) |
| Gene body | 157,160 | 4,539 (2.9%) | 3,894 (2.5%) | 7,072 (4.5%) | 24,809 (15.8%) |
| 3′UTR | 17,170 | 382 (2.2%) | 453 (2.6%) | 750 (4.4%) | 2,478 (14.4%) |
| Total | 471,512 | 14,053 (3.0%) | 9,510 (2.0%) | 17,037 (3.6%) | 80,549 (17.1%) |
|
| |||||
| Relation to CGI | |||||
| CGI | 145,443 | 3,848 (2.6%) | 884 (0.6%) | 6,541 (4.5%) | 6,612 (4.5%) |
| Shore and shelf | 156,254 | 5,230 (3.3%) | 2,960 (1.9%) | 6,180 (4.0%) | 26,231 (16.8%) |
| Open sea∗ | 169,815 | 4,975 (2.9%) | 5,666 (3.3%) | 4,316 (2.5%) | 47,706 (28.1%) |
| Total | 471,512 | 14,053 (3.0%) | 9,510 (2.0%) | 17,037 (3.6%) | 80,549 (17.1%) |
∗Outside of island, shore, and shelf.
Δβ of LM: average of the β values of three LM samples − average of the β values of three NM samples.
Δβ of LMS: average of the β values of three LMS samples − average of the β values of three NM samples.