ArticleNPJ systems biology and applications2023
MorphoSim: an efficient and scalable phase-field framework for accurately simulating multicellular morphologies.
Article in NPJ systems biology and applications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Multicellular simulations with shape and volume constraints using optimal transport.Science advances · 2026Article
- Computational models in directed cell migration.Frontiers in cell and developmental biology · 2026Review
- Cooperative short- and long-range interactions enable robust symmetry breaking and axis formation.bioRxiv : the preprint server for biology · 2025Article
- Capturing nematic order on tissue surfaces of arbitrary geometry.Nature communications · 2025Article
- Characterizing Cellular Physiological States with Three-Dimensional Shape Descriptors for Cell Membranes.Membranes · 2024Article
- A mathematical framework for understanding the spontaneous emergence of complexity applicable to growing multicellular systems.PLoS computational biology · 2024Article
- Cell-based allometry: an approach for evaluation of complexity in morphogenesis.Quantitative biology (Beijing, China) · 2023Article
- Stability of asymmetric cell division: A deformable cell model of cytokinesis applied to C. elegans.Biophysical journal · 2023Article
- Delineating the mechanisms and design principles ofComputational and structural biotechnology journal · 2022Review
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Authors and funding
4 authors.
Funding
Abstract
The phase field model can accurately simulate the evolution of microstructures with complex morphologies, and it has been widely used for cell modeling in the last two decades. However, compared to other cellular models such as the coarse-grained model and the vertex model, its high computational cost caused by three-dimensional spatial discretization hampered its application and scalability, especially for multicellular organisms. Recently, we built a phase field model coupled with in vivo imaging data to accurately reconstruct the embryonic morphogenesis of Caenorhabditis elegans from 1- to 8-cell stages. In this work, we propose an improved phase field model by using the stabilized numerical scheme and modified volume constriction. Then we present a scalable phase-field framework, MorphoSim, which is 100 times more efficient than the previous one and can simulate over 100 mechanically interacting cells. Finally, we demonstrate how MorphoSim can be successfully applied to reproduce the assembly, self-repairing, and dissociation of a synthetic artificial multicellular system - the synNotch system.
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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 Socratic graph.