| 5mC | 5-methylcytosine |
| AGO | ARGONAUTE |
| CLSY1-4 | CLASSY1-4 |
| CMT2 | CHROMOMETHYLASE 2 |
| CMT3 | CHROMOMETHYLASE 3 |
| DCL | DICER-LIKE |
| ddc | the drm1 drm2 cmt3 mutant |
| ddcc | the drm1 drm2 cmt2 cmt3 mutant |
| DME | DEMETER |
| DML2 | DEMETER-LIKE 2 |
| DML3 | DEMETER-LIKE 3 |
| Dnmt1 | DNA methyltransferase 1 |
| DRM1 | DOMAINS REARRANGED METHYLTRANSFERASE 1 |
| DRM2 | DOMAINS REARRANGED METHYLTRANSFERASE 2 |
| KTF1 | KOW DOMAIN-CONTAINING TRANSCRIPTION FACTOR 1 |
| MEG | maternally expressed imprinted gene |
| MET1 | DNA METHYLTRANSFERASE 1 in plants |
| NRPE1 | NUCLEAR RNA POLYMERASE E1 |
| PcG | Polycomb group proteins |
| PEG | paternally expressed imprinted gene |
| RdDM | RNA-directed DNA methylation |
| RDR | RNA-dependent RNA polymerase |
| ROS1 | REPRESSOR OF SILENCING 1 |
| siRNA | small interference RNA |
| TET | Ten-eleven-translocation enzyme |
| TSS | transcriptional start site |
| TTS | transcriptional termination site |