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Cell-type Taxonomies
Working with the BRAIN Initiative Cell Atlas Network (BICAN), we build and maintain data-driven cell-type taxonomies of the mammalian brain. Each taxonomy is a structured, versioned classification of the cell types found in an atlas, maintained as a Cell Annotation Schema taxonomy using the BICAN Taxonomy Development Tools. These taxonomies provide the bridge between raw single-cell data and the Cell Ontology.
Whole Mouse Brain taxonomy v1
A comprehensive cell-type taxonomy covering the entire mouse brain (CCN20230722), derived from the Allen Brain Cell Atlas and published in Nature (2024).
Whole Mouse Brain taxonomy v2 (consensus)
The second-generation consensus cell-type taxonomy of the whole mouse brain (CCN20251031), integrating data across sources into a single reconciled taxonomy.
Basal Ganglia — 3-species consensus
The HMBA cross-species consensus cell-type taxonomy of the primate basal ganglia (CS20250428), reconciling cell types across three species. It underpins the 2025 cross-species consensus atlas of the primate basal ganglia.
Related anatomy ontologies
These taxonomies are accompanied by standard OBO ontology versions of the corresponding brain anatomies — see Uberon for the Allen Brain Atlas ontologies (DHBA, HBA, MBA, HOMBA) and the Basal Ganglia Ontology (BGO).