The Ensembl Regulation team is part of the broader Ensembl project. We develop, adapt and run computational methods to identify and characterise genomic regulatory elements, such as promoters, enhancers and CTCF binding sites.

Our work focuses on species of key importance to biomedical and agricultural research. We currently provide regulatory annotation for human and mouse, and major livestock and aquaculture species.

Our annotations are based primarily on ChIP-seq, DNase-seq, and ATAC-seq data generated by the ENCODE and FAANG consortia, and gene annotation from Ensembl/GENCODE.

How to cite

To cite our regulatory annotation and website, please refer to the following preprint:

Ilsley, G.R., Branco Lins, P.R., Merino, G.A., Urbina-Gómez, D., Harrison, P.W., 2026. Ensembl’s regulatory annotation for human, mouse, livestock, and aquaculture species . https://doi.org/10.21203/rs.3.rs-8007521/v1

Acknowledgements

We thank Andrey Azov and the wider Ensembl team for the genome annotation component on the Genome view tab. This component was developed for our regulatory activity viewer prototype, as described in:

Yates, A. D. et al. Ensembl 2026. Nucleic Acids Res (2025). https://doi.org/10.1093/nar/gkaf1239 .