| Field |
Value |
| Identifier |
nemo:dat-aa0jwmj |
| Dataset Name |
The molecular cytoarchitecture of the adult mouse brain |
| Version |
NA |
| Release Date |
NA |
| DOI |
NA |
| Source Data URL |
|
| Dataset Collection URL |
https://data.nemoarchive.org/publication_release/Langlieb_Macosko_WMB_Atlas_2023.tgz |
| Description |
The function of the mammalian brain relies upon the specification and spatial positioning of diversely specialized cell types. Yet, the molecular identities of the cell types, and their positions within individual anatomical structures, remain incompletely known. To construct a comprehensive atlas of cell types in each brain structure, we paired high-throughput single-nucleus RNA-seq with Slide-seq–a recently developed spatial transcriptomics method with near-cellular resolution–across the entire mouse brain. Integration of these datasets revealed the cell type composition of each neuroanatomical structure. Cell type diversity was found to be remarkably high in the midbrain, hindbrain, and hypothalamus, with most clusters requiring a combination of at least three discrete gene expression markers to uniquely define them. Using these data, we developed a framework for genetically accessing each cell type, comprehensively characterized neuropeptide and neurotransmitter signaling, elucidated region-specific specializations in activity-regulated gene expression, and ascertained the heritability enrichment of neurological and psychiatric phenotypes. These data, available as an online resource (BrainCellData.org) should find diverse applications across neuroscience, including the construction of new genetic tools, and the prioritization of specific cell types and circuits in the study of brain diseases. |
| Keywords |
Whole brain atlas, Mouse, Spatial transcriptomics, Disease risk |
| Total Files in Collection |
2252 |
| Total Size in Collection (in GB) |
51612.7 |
| Authors |
Jonah Langlieb, Nina S. Sachdev, Karol S. Balderrama, Naeem M. Nadaf, Mukund Raj, Evan Murray, James T. Webber, Charles Vanderburg, Vahid Gazestani, Daniel Tward, Chris Mezias, Xu Li, Katelyn Flowers, Dylan M. Cable, Tabitha Norton, Partha Mitra, Fei Chen, Evan Z. Macosko |
| Organization |
Broad Institute of Harvard and MIT, Cambridge, MA USA |
| Contact Person |
Evan Macosko |
| Contact E-Mail |
emacosko@broadinstitute.org |
| External Identifier |
https://doi.org/10.1038/s41586-023-06818-7 |
| Grant Name |
1U19MH114821; RF1MH124598; Stanley Center for Psychiatric Research |
| Consortium |
BICCN |
| Data Repository |
NeMO |
| Data Repository RRID |
RRID:SCR_016152 |
| Data License |
CC BY 4.0 |
| Data Access |
https://biccn.org/terms-of-use |
| Community Standards |
https://biccn.org/standards |
| Study Organism |
Mus musculus |
| Protocol ID |
dx.doi.org/10.17504/protocols.io.bck6iuze; dx.doi.org/10.17504/protocols.io.bv7vn9n6; dx.doi.org/10.17504/protocols.io.bpgzmjx6 |
