ReviewAnnual review of biophysics2025
Soft Modes as a Predictive Framework for Low-Dimensional Biological Systems Across Scales.
Review in Annual review of biophysics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
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Who cites it
11 citing papers in PubMed.
- Evolution of phenocopying in a dynamical model of developmental trajectories.PLoS computational biology · 2026Article
- Simple biological controllers drive the evolution of soft modes.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Physiological architecture and evolutionary origins of cellular adaptability.bioRxiv : the preprint server for biology · 2026Article
- Bridging developmental and statistical approaches to variation and evolution.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Genotype-fitness mapping of adaptive mutants reveals shifting low-dimensional structure across divergent environments.PLoS biology · 2026Article
- Microbiome assembly statistics toward ecosystem-scale insights, forecasting, and management.The ISME journal · 2026Review
- Searching for physical principles of morphogenesis.Development (Cambridge, England) · 2025Review
- Fluctuation structure predicts genome-wide perturbation outcomes.Research square · 2025Article
- Dynamical systems of fate and form in development.Seminars in cell & developmental biology · 2025Review
- Article
- Fluctuation structure predicts genome-wide perturbation outcomes.bioRxiv : the preprint server for biology · 2025Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
All biological systems are subject to perturbations arising from thermal fluctuations, external environments, or mutations. Yet, while biological systems consist of thousands of interacting components, recent high-throughput experiments have shown that their response to perturbations is surprisingly low dimensional: confined to only a few stereotyped changes out of the many possible. In this review, we explore a unifying dynamical systems framework-soft modes-to explain and analyze low dimensionality in biology, from molecules to ecosystems. We argue that this soft mode framework makes nontrivial predictions that generalize classic ideas from developmental biology to disparate systems, namely phenocopying, dual buffering, and global epistasis. While some of these predictions have been borne out in experiments, we discuss how soft modes allow for a surprisingly far-reaching and unifying framework in which to analyze data from protein biophysics to microbial ecology.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.