bioRxiv

Tests back predicted gene links in aging human skin cells

Experiments confirmed 53.8% of testable gene interactions predicted in human skin cells, a higher share than other methods or random predictions.

Paper by M. S. Krieger, D. Milanova, D. Thompson, 8 more authorsG. Church · Medici Therapeutics
A large, slender dark blue-green fibroblast with a prominent nucleus sits beside a smaller slender cell and broader gray cells.
Preprint: experiments in human skin fibroblasts, against other prediction methods and random predictionsInterventions

Limit: Only testable predicted links contributed to the confirmation rate, excluding untestable links

Edited by Boris Djordjevic · AgingResearch.News

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In a cross-sectional analysis, researchers studied gene activity in human skin fibroblasts—cells that help maintain connective tissue—from 490 donors. A computational method called convergent cross mapping used data ordered by donor age to predict links between genes.

The researchers tested predictions in lab experiments by increasing the activity of individual genes in fibroblasts from 55-year-old donors. Measurements of gene activity in individual cells confirmed 53.8% of testable predicted interactions, exceeding results from comparison methods and random predictions. Separate measurements of gene activity and cell appearance showed that selected interventions shifted older cells toward profiles characteristic of younger cells. With the strongest interventions, a majority of cells from 55-year-old donors resembled cells from 25-year-old donors.

Why it matters

Genes that change with age are not necessarily responsible for those changes. Distinguishing the two could help researchers choose targets for experiments on cellular aging.

Caveats

The network was inferred from cross-sectional data, not by following individuals as they aged. The experiments tested cells grown in the lab, not aging in people, and the preprint has not been peer-reviewed.