The mission of BioStudies is to provide access to all the data outputs of a life sciences study from a single place, by organising links to data in other databases at EMBL-EBI or elsewhere, as well as hosting data and metadata that do not fit anywhere else. The database accepts submissions via an online tool, or in a simple tab-delimited format. BioStudies provides rich mechanisms for defining and using metadata guidelines specific for a particular data source such as a project or a community, and organises datasets in collections.

Rhea is a comprehensive and non-redundant resource of expert-curated chemical and transport reactions of biological interest. Rhea can be used for enzyme annotation, genome-scale metabolic modeling and omics-related analysis. Rhea describes enzyme-catalyzed reactions covering the IUBMB Enzyme Nomenclature list as well as additional reactions, including spontaneously occurring reactions. Rhea is built on ChEBI (Chemical Entities of Biological Interest) ontology of small molecules to describe its reaction participants. Since December 2018, Rhea is the standard for enzyme annotation in UniProt.

The Human Ageing Genomic Resources (HAGR) is a collection of databases and tools for the biology and genetics of ageing. HAGR features several databases with high-quality, manually-curated data: 1) GenAge, a database of genes associated with ageing in humans and model organisms; 2) AnAge, an extensive collection of longevity records and complementary traits for over 4,000 vertebrate species; and 3) GenDR, a database containing both gene mutations that interfere with dietary restriction-mediated lifespan extension and consistent gene expression changes induced by dietary restriction.

Genome properties is an annotation system whereby functional attributes can be assigned to a genome, based on the presence of a defined set of protein signatures within that genome. This is a reimplementation at EMBL-EBI of a resource previously hosted at JCVI.

The Mitochondrial Disease Sequence Data Resource (MSeqDR) is a centralized genome and phenome bioinformatics resource built by the mitochondrial disease community to facilitate clinical diagnosis and research investigations of individual patient phenotypes, genomes, genes, and variants. It integrates community knowledge from expert‐curated databases with genomic and phenotype data shared by clinicians and researchers.

The Catalogue of Life (COL) stores information on species and their distribution across the globe. It consists of a single integrated species checklist and taxonomic hierarchy. The Catalogue holds essential information on the names, relationships and distributions of over 1.8 million species. This figure continues to rise as information is compiled from diverse sources around the world. The Catalogue of Life provides critical species information on: synonymy enabling the effective referral of alternative species names to an accepted name; higher taxa within which a species is clustered; and distribution identifying the global regions from which a species is known.

PDX Finder is an open repository for the upload and storage of clinical, genomic and functional Patient-Derived Xenograph (PDX) data which provides a comprehensive global catalogue of PDX models available for researchers across distributed repository databases. Integrated views are provided for histopathological image data, molecular classification of tumors, host mouse strain metadata, tumor genomic data and metrics on tumor response to chemotherapeutics. The data model for PDX Finder is based on the minimal information standard for PDX models developed in collaboration with a broad range of stakeholders who create and/or use PDX models in basic and pre-clinical cancer research.

The Enzyme Portal is for those interested in the biology of enzymes and proteins with enzymatic activity. It integrates publicly available information about enzymes, such as small-molecule chemistry, biochemical pathways and drug compounds. It contains enzyme-related information from resources developed at the EBI, and presents it via a unified user experience. The Enzyme Portal team does not curate enzyme information and therefore is a secondary information resource or portal.