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BIL Logo Cross-species spatial transcriptomic atlas of the basal ganglia

[ DOI: https://doi.org/10.35077/g.1211 ]

 

Dataset Citation:
Allen Institute for Brain Science, Lein, Ed, Zeng, Hongkui, Long, Brian, Close, Jennie, Seeman, Stephanie, Turner, Meghan, Hewitt, Madeleine, Hodge, Rebecca, McMillen, Delissa, Martin, Naomi, Valera Cuevas, Nasmil, Olsen, Paul, Campos, Jazmin, VanNess, Marshall, Nagra, Josh. (2026). Cross-species spatial transcriptomic atlas of the basal ganglia. [ Collection / Dataset ]. Brain Image Library. https://doi.org/10.35077/g.1211

 

Abstract:
The basal ganglia are interconnected subcortical nuclei with complex topographical organization that orchestrate goal-directed behaviors and are implicated in neurodegenerative movement disorders. We generated a cellular-resolution, spatial transcriptomic atlas of the basal ganglia in human, rhesus macaque, and common marmoset, sampling over one million cells in each species. By integrating spatial data with a cross-species, consensus snRNA-seq cell type taxonomy, this atlas reveals conserved principles of molecular organization within and across structures. The cellular architecture is complex but highly stereotyped, with gene expression gradients superimposed onto discrete compartments. Extensive spatial sampling illuminates 3D gradients of molecular organization in the striatum and reveals cell type-specific core and shell compartments in the primate internal globus pallidus. This unified, cross-species spatial transcriptomic atlas will be a foundational resource for characterizing the molecular and functional organization of the basal ganglia and their roles in health and disease. 

 

Funding:
National Institutes of Health 1-UM1-MH130981-01 Human and Mammalian Brain Atlas

 

Contributors:
Allen Institute for Brain Science (ResearchGroup) Allen Institute for Brain Science
Lein, Ed (ProjectLeader) [ORCID: https://orcid.org/0000-0001-9012-6552 ] Allen Institute for Brain Science
Zeng, Hongkui (ProjectLeader) [ORCID: https://orcid.org/0000-0002-0326-5878 ] Allen Institute for Brain Science
Long, Brian (ProjectLeader) [ORCID: https://orcid.org/0000-0002-7793-5969 ] Allen Institute for Brain Science
Close, Jennie (ProjectLeader) [ORCID: https://orcid.org/0000-0001-9234-5855 ] Allen Institute for Brain Science
Seeman, Stephanie (Researcher) [ORCID: https://orcid.org/0000-0003-3894-1992 ] Allen Institute for Brain Science
Turner, Meghan (Researcher) [ORCID: https://orcid.org/0000-0003-2451-5036 ] Allen Institute for Brain Science
Hewitt, Madeleine (Researcher) [ORCID: https://orcid.org/0000-0002-4387-327X ] Allen Institute for Brain Science
Hodge, Rebecca (Researcher) [ORCID: https://orcid.org/0000-0002-5784-9668 ] Allen Institute for Brain Science
Waters, Jack (Other) [ORCID: https://orcid.org/0000-0002-2312-4183 ] Allen Institute for Brain Science
McMillen, Delissa (DataCollector) [ORCID: https://orcid.org/0000-0002-3413-4424 ] Allen Institute for Brain Science
Kruse, Lauren (ProjectManager) [ORCID: https://orcid.org/0000-0002-3428-2443 ] Allen Institute for Brain Science
Martin, Naomi (DataCollector) [ORCID: https://orcid.org/0000-0002-0034-1628 ] Allen Institute for Brain Science
Valera Cuevas, Nasmil (DataCollector) [ORCID: https://orcid.org/0000-0002-9846-3796 ] Allen Institute for Brain Science
Olsen, Paul (DataCollector) [ORCID: https://orcid.org/0000-0001-8132-3722 ] Allen Institute for Brain Science
Campos, Jazmin (DataCollector) [ORCID: https://orcid.org/0000-0002-9384-9913 ] Allen Institute for Brain Science
VanNess, Marshall (DataCollector) [ORCID: https://orcid.org/0009-0009-5415-202X ] Allen Institute for Brain Science
Nagra, Josh (DataCollector) [ORCID: https://orcid.org/0009-0005-3746-0240 ] Allen Institute for Brain Science

 

Related Identifiers:
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