Cell Type Taxonomies Index

The Allen Institute and BRAIN Initiative collaborators have created a series of cell type classifications for multiple brain regions in human, mouse, and non-human primate. Most recently this has culminated in the presentation of whole brain atlases that will be refined and expanded. Cell type taxonomies linked to at least one navigation tool are listed below in the context of their scientific publication.

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Mouse
Whole Mouse Brain Consensus

An integrated taxonomy of the whole mouse brain built upon two publicly released transcriptionally defined WMB taxonomies from Allen Institute for Brain Science and Broad Institute.

Cross-Species
Cross-Species Basal Ganglia Taxonomy

A taxonomy of basal ganglia cell types in the human, macaque and marmoset brains, part of the Human and Mammalian Brain Atlas effort to create a cross-species taxonomy of brain cell types across mammalian species

Human
Human MTG SMART-Seq Taxonomy

Taxonomy of human middle temporal gyrus generated with SMART-seq data in 2019

Cross-Species
Comparative Lateral Geniculate Nucleus Taxonomy

A cross-species taxonomy of the dorsal lateral geniculate nucleus (dLGN), the brain region that conveys visual information from the mammalian retina to the primary visual cortex

Cross-Species
Mammalian Primary Motor Cortex Taxonomy

This resource summarizes the generation of a multimodal cell census and atlas of the mammalian primary motor cortex as the initial product of the BRAIN Initiative Cell Census Network (BICCN)

Human
Human Neocortex Taxonomy

This study used single cell transcriptomics and performed cellular characterization of eight areas in human neocortex to better understand cortical areal specialization.

Human
Human MTG SEA-AD Taxonomy

A taxonomy of the human middle temporal gyrus developed as part of the Seattle Alzheimer's Disease Brain Cell Atlas

Human
Whole Human Brain Taxonomy

This study used single-nucleus RNA sequencing to systematically survey cells across the entire adult human brain.

Mouse
Mouse V1 & ALM Taxonomy

A taxonomy of the mouse visual and anterior lateral motor cortex

Mouse
Mouse Isocortex & Hippocampal Formation Taxonomy

A hierarchical cell type taxonomy comprising 379 transcriptomic types found in the mouse isocortex and hippocampal formation

Mouse
Whole Mouse Brain Cell Type Taxonomy

A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain