ArticlePLoS computational biology2017
Comparing individual-based approaches to modelling the self-organization of multicellular tissues.
Article in PLoS computational biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 101 papers, 1 of them a synthesis that pooled it.
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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.
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Who cites it
101 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Pooled it
- A Cellular Automaton-Based Computational Model for Fluid Shear Stress-Induced Differentiation and Migration of Osteoprogenitor Cells in a Microfluidic Chip.Bioengineering (Basel, Switzerland) · 2026Article
- Multicellular simulations with shape and volume constraints using optimal transport.Science advances · 2026Article
- Virtual twins and the future of human developmental biology.NPJ systems biology and applications · 2026Review
- Exploring the relationship between vascular remodelling and tumour growth using agent-based modelling.PLoS computational biology · 2026Article
- Biophysical Modeling Reveals How Gene Expression Drives Tissue-Scale Fat Deposition in Beef Breeds.Biology · 2026Article
- Emergent stable tissue shapes from the regulatory feedback between morphogens and cell growth.Journal of theoretical biology · 2026Article
- Reconstructing single-cell resolution from spatial transcriptomics with CellRefiner.Nature communications · 2026Article
- Linking tissue morphology and tissue healing in a cell-fate model.Frontiers in cell and developmental biology · 2026Article
- Generative diffusion model surrogates for mechanistic agent-based biological models.Machine learning: science and technology · 2025Article
- Surrogate modeling of Cellular-Potts agent-based models as a segmentation task using the U-Net neural network architecture.PLoS computational biology · 2025Article
- Cooperative short- and long-range interactions enable robust symmetry breaking and axis formation.bioRxiv : the preprint server for biology · 2025Article
- Local activation of Cxcl12a signaling controls olfactory placode morphogenesis in zebrafish embryos.iScience · 2025Article
- Altered thymic niche synergistically drives the massive proliferation of malignant thymocytes.eLife · 2025Article
- Emergent Stable Tissue Shapes from the Regulatory Feedback between Morphogens and Cell Growth.bioRxiv : the preprint server for biology · 2025Article
- Article
- A Discretized Overlap Resolution Algorithm (DORA) for resolving spatial overlaps in individual-based models of microbes.PLoS computational biology · 2025Article
- Individual-based modeling unravels spatial and social interactions in bacterial communities.The ISME journal · 2025Review
- Emergent order in epithelial sheets by interplay of cell divisions and cell fate regulation.PLoS computational biology · 2024Article
- Integrating mechanism-based T cell phenotypes into a model of tumor-immune cell interactions.APL bioengineering · 2024Article
41 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
The coordinated behaviour of populations of cells plays a central role in tissue growth and renewal. Cells react to their microenvironment by modulating processes such as movement, growth and proliferation, and signalling. Alongside experimental studies, computational models offer a useful means by which to investigate these processes. To this end a variety of cell-based modelling approaches have been developed, ranging from lattice-based cellular automata to lattice-free models that treat cells as point-like particles or extended shapes. However, it remains unclear how these approaches compare when applied to the same biological problem, and what differences in behaviour are due to different model assumptions and abstractions. Here, we exploit the availability of an implementation of five popular cell-based modelling approaches within a consistent computational framework, Chaste (http://www.cs.ox.ac.uk/chaste). This framework allows one to easily change constitutive assumptions within these models. In each case we provide full details of all technical aspects of our model implementations. We compare model implementations using four case studies, chosen to reflect the key cellular processes of proliferation, adhesion, and short- and long-range signalling. These case studies demonstrate the applicability of each model and provide a guide for model usage.
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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.