ReviewReports on progress in physics. Physical Society (Great Britain)2023
Theoretical and computational tools to model multistable gene regulatory networks.
Review in Reports on progress in physics. Physical Society (Great Britain), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
7 citing papers in PubMed.
- Hallmarks of epithelial-mesenchymal plasticity in cancer.Molecular cancer · 2026Review
- GRiNS: a python library for simulating gene regulatory network dynamics.BMC bioinformatics · 2025Article
- Multistability and predominant hybrid phenotypes in a four node mutually repressive network of Th1/Th2/Th17/Treg differentiation.NPJ systems biology and applications · 2024Article
- Tipping points in epithelial-mesenchymal lineages from single-cell transcriptomics data.Biophysical journal · 2024Article
- Is the time right for a new initiative in mathematical modeling of the lower urinary tract? ICI-RS 2023.Neurourology and urodynamics · 2024Review
- Spatial transition tensor of single cells.Nature methods · 2024Article
- Turing Instabilities are Not Enough to Ensure Pattern Formation.Bulletin of mathematical biology · 2024Article
Corrections and comments
- Update of
Authors and funding
5 authors.
Funding
Abstract
The last decade has witnessed a surge of theoretical and computational models to describe the dynamics of complex gene regulatory networks, and how these interactions can give rise to multistable and heterogeneous cell populations. As the use of theoretical modeling to describe genetic and biochemical circuits becomes more widespread, theoreticians with mathematical and physical backgrounds routinely apply concepts from statistical physics, non-linear dynamics, and network theory to biological systems. This review aims at providing a clear overview of the most important methodologies applied in the field while highlighting current and future challenges. It also includes hands-on tutorials to solve and simulate some of the archetypical biological system models used in the field. Furthermore, we provide concrete examples from the existing literature for theoreticians that wish to explore this fast-developing field. Whenever possible, we highlight the similarities and differences between biochemical and regulatory networks and 'classical' systems typically studied in non-equilibrium statistical and quantum mechanics.
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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.