Reference
Consult trusted anatomical atlases and cell type taxonomies to design experiments, register and map your data, and understand structure of the brain.
Cell types
The Allen Institute and BRAIN Initiative have published a series of cell type classifications, spanning mammalian species, brain regions, and developmental time points.
Taxonomies
Find the taxonomy for your circumstances: species, developmental stage, disease context. Visualize and explore in ABC Atlas, map your data using MapMyCells, and download the taxonomy and related data for offline work.
Deep dive: primary motor cortex
Explore the multimodal cell census and atlas of primary motor cortex, developed in collaboration with the BRAIN Initiative Cell Census Network (BICCN) and described in detail in the BICCN flagship publication. It captures individual cell type taxonomies for human, marmoset, and mouse primary motor cortex. High-throughput, single-cell transcriptomic and epigenomic profiling demonstrates broad conservation of molecular cell type identities across these three species.
Anatomy
Among our most widely cited resources, these neuroanatomical atlases provide data-driven, high-resolution maps of the mammalian brain.
Related Resources
A catalog of Allen Institute's resources to help better understand cell types: what they are, how to use our tools, and putting it all together for your workflows.
An inventory of tools and resources for using the most recent adult mouse atlas, aka CCF v3.
All documentation for the atlases