species	species_en	title	first_author	year	journal	pmid	tissue	cells	finding	url
Homo sapiens	Human	Human skeletal muscle aging atlas (cross-species with mouse)	Kedlian V.R. et al.	2024	Nature Aging	38622407	Intercostal muscle + mouse hindlimb	90,902 human cells + 92,259 nuclei; 17 donors	Muscle stem-cell subtype aging (reduced ribosome biogenesis, increased CCL2), NMJ remodeling, fast-twitch fiber loss	https://doi.org/10.1038/s43587-024-00613-3
Homo sapiens	Human	Single-cell transcriptomes of human skin reveal age-related loss of fibroblast priming	Solé-Boldo L. et al.	2020	Communications Biology	32327715	Skin (dermal fibroblasts)	~5,000-15,000 fibroblasts (young vs old)	Defines 4 fibroblast subtypes; aging reduces fibroblast functional priming and aged fibroblast-keratinocyte communication	https://doi.org/10.1038/s42003-020-0922-4
Mus musculus	Mouse	Tabula Muris Senis: a single-cell transcriptomic atlas characterizes ageing tissues in the mouse	Tabula Muris Consortium	2020	Nature	32669714	23 tissues/organs, male+female, 6 age groups (1-30 months)	>350,000 cells	Landmark whole-body mouse ageing atlas; cell-specific aging changes, cellular composition shifts, senescence (p16/Cdkn2a), somatic mutation accumulation, B/T-cell clonality	https://doi.org/10.1038/s41586-020-2496-1
Rattus norvegicus	Rat	Caloric Restriction Reprograms the Single-Cell Transcriptional Landscape of Rattus Norvegicus Aging	Ma S., Sun S., Geng L. et al.	2020	Cell	32109414	9 tissues (aging + caloric restriction)	~210,000 cells/nuclei	First multi-tissue rat aging atlas with CR; CR reverses ~25% of aging-regulated genes, chronic inflammation common across tissues, S100A8/Ybx1 as switches	https://doi.org/10.1016/j.cell.2020.02.008
Macaca mulatta	Rhesus macaque	Single-cell, multi-region profiling of the macaque brain across the lifespan (preprint)	Yang W., Chiou K., Shendure J. et al.	2025	bioRxiv (preprint)	41279774	11 brain regions	5.3 million cells, 55 rhesus macaques (5 mo - 21 yr)	Rhesus brain aging atlas; vulnerable cortical neurons, age/AD program overlap, region- and sex-specific windows of vulnerability	https://doi.org/10.1101/2025.10.31.685880
Danio rerio	Zebrafish	Construction of a cross-species cell landscape at single-cell level (zebrafish developmental & aging atlas)	Wang R., Zhang P., Wang J., Ma L. et al.	2023	Nucleic Acids Research	35929025	Whole-body (larval 21d + adult 22mo)	452,878 cells (Microwell-seq)	Organism-level zebrafish cell landscape spanning development to aging; cross-species framework for development, maturation and aging	https://doi.org/10.1093/nar/gkac633
Drosophila melanogaster	Fruit fly	A single-cell transcriptome atlas of the aging Drosophila brain	Davie K. et al.	2018	Cell	29909982	Brain	~100,000 cells across lifespan	Aging fly brain atlas; age-specific glial and neuron changes, providing cell-type-resolved view of brain aging in Drosophila	https://doi.org/10.1016/j.cell.2018.05.057
Macaca fascicularis	Cynomolgus macaque	Single-cell transcriptomic atlas of primate ovarian aging	Wang et al.	2020	Cell	32004457	Ovary	3521 cells (4 aged + 4 young cynomolgus macaques)	First single-cell transcriptomic atlas of primate ovarian ageing; seven ovarian cell types; antioxidant genes (e.g. GSR) decline in aged oocytes/granulosa and drive age-related ovarian decline	https://pubmed.ncbi.nlm.nih.gov/32004457/