ArticleJournal of the Royal Society, Interface2021
Phase transitions and assortativity in models of gene regulatory networks evolved under different selection processes.
Article in Journal of the Royal Society, Interface, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed, 4 citations in OpenAlex.
- Optimal dismantling of directed networks.Nature communications · 2026Article
- Longitudinal network changes and phenoconversion risk in isolated REM sleep behavior disorder.Nature communications · 2024Article
- Irreversibility in bacterial regulatory networks.Science advances · 2024Article
- Longitudinal Network Changes and Phenoconversion Risk in Isolated REM Sleep Behavior Disorder.Research square · 2024Article
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3 authors at 3 institutions in 1 country.
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Abstract
We study a simplified model of gene regulatory network evolution in which links (regulatory interactions) are added via various selection rules that are based on the structural and dynamical features of the network nodes (genes). Similar to well-studied models of 'explosive' percolation, in our approach, links are selectively added so as to delay the transition to large-scale damage propagation, i.e. to make the network robust to small perturbations of gene states. We find that when selection depends only on structure, evolved networks are resistant to widespread damage propagation, even without knowledge of individual gene propensities for becoming 'damaged'. We also observe that networks evolved to avoid damage propagation tend towards disassortativity (i.e. directed links preferentially connect high degree 'source' genes to low degree 'target' genes and vice versa). We compare our simulations to reconstructed gene regulatory networks for several different species, with genes and links added over evolutionary time, and we find a similar bias towards disassortativity in the reconstructed networks.
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