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.

Regulatory features can be explored across the genome on the Genome view page. The Regulatory features page is useful if you want to download features or have a regulatory feature ID to look up. The metadata underlying our annotation pipeline is available under Source data, and higher-level groupings of replicates can be viewed in Epigenomes.

If you have questions or suggestions, Contact us using the link at the top right of the page.

Details of the method can be found at 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