Aging Mouse Brain Epigenetic

Description

Aging is a major risk factor for neurodegenerative diseases, yet underlying epigenetic mechanisms remain unclear. Here, we generated a comprehensive single-nucleus cell atlas of brain aging across multiple brain regions, comprising 132,551 single-cell methylomes and 72,666 joint chromatin conformation-methylome nuclei. Integration with companion transcriptomic and chromatin accessibility data yielded a cross-modality taxonomy of 36 major cell types. The bucket holds two parts of this atlas, from mice at 2, 9 and 18 months: (1) female-amb-sc-allc/, single-cell DNA methylation (ALLC) files for 77,001 female nuclei in 29 pools (pool_amb*/), one tabix-indexed .allc.tsv.gz file per nucleus (8.4 TB); (2) raw MERFISH spatial transcriptomics runs of brain slices, one .tar.gz archive per run (10 runs, 22.3 TB).

Update Frequency

Never

License

NCBI Policy and NIH Genomic Data Sharing Policy

Documentation

https://doi.org/10.1101/2025.04.21.648266

Managed By

Salk Institute

See all datasets managed by Salk Institute.

Contact

ecker@salk.edu

How to Cite

Aging Mouse Brain Epigenetic was accessed on DATE from https://registry.opendata.aws/salk-aging-mouse-brain-epigeneti.

Usage Examples

Publications

• Cell-type-specific transposable element demethylation and TAD remodeling in the aging mouse brain by Zeng, Q., Wei, T., Klein, A., Bartlett, A., Liu, H., Nery, J.R., Castanon, R., Osteen, J., Johnson, N.D., Wang, W., Ding, W., Chen, H., Altshul, J., Kenworthy, M., Valadon, C., Owens, W., Wu, Z., Amaral, M.L., Song, Báez-Becerra, T.a.t.i.a.n.a., Cho, S., Chen, C., Willier, J., Cao, S., Rink, J., Lee, J., Barcoma, A., Arzavala, J., Emerson, N., Lu, Y.R., Ren, B., Behrens, M.a.r.g.a.r.i.t.a., Ecker, J.R.