ArticlePLoS computational biology2021
Topological data analysis distinguishes parameter regimes in the Anderson-Chaplain model of angiogenesis.
Article in PLoS computational biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 38 citations in OpenAlex.
- Topological model selection: a case-study in tumour-induced angiogenesis.Bioinformatics (Oxford, England) · 2026Article
- Persistent Homology Classifies Parameter Dependence of Patterns in Turing Systems.Bulletin of mathematical biology · 2025Article
- Topology across scales on heterogeneous cell data.PLoS computational biology · 2025Article
- Topological classification of tumour-immune interactions and dynamics.Journal of mathematical biology · 2025Article
- Falsifying computational models of endothelial cell network formation through quantitative comparison with in vitro models.PLoS computational biology · 2025Article
- Empowering High-Throughput High-Content Analysis of Microphysiological Models: Open-Source Software for Automated Image Analysis of Microvessel Formation and Cell Invasion.Cellular and molecular bioengineering · 2024Article
- Relational Persistent Homology for Multispecies Data with Application to the Tumor Microenvironment.Bulletin of mathematical biology · 2024Article
- Dissecting glial scar formation by spatial point pattern and topological data analysis.Scientific reports · 2024Article
- Computational methods and biomarker discovery strategies for spatial proteomics: a review in immuno-oncology.Briefings in bioinformatics · 2024Review
- Quantifying collective motion patterns in mesenchymal cell populations using topological data analysis and agent-based modeling.Mathematical biosciences · 2024Article
- Enhanced perfusion following exposure to radiotherapy: A theoretical investigation.PLoS computational biology · 2024Article
- Topological Data Analysis Captures Task-Driven fMRI Profiles in Individual Participants: A Classification Pipeline Based on Persistence.Neuroinformatics · 2024Article
- Topological data analysis of spatial patterning in heterogeneous cell populations: clustering and sorting with varying cell-cell adhesion.NPJ systems biology and applications · 2023Article
- Zigzag persistence for coral reef resilience using a stochastic spatial model.Journal of the Royal Society, Interface · 2023Article
- The shape of cancer relapse: Topological data analysis predicts recurrence in paediatric acute lymphoblastic leukaemia.PLoS computational biology · 2023Article
- Algebra, Geometry and Topology of ERK Kinetics.Bulletin of mathematical biology · 2022Article
- Multiscale topology characterizes dynamic tumor vascular networks.Science advances · 2022Article
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 2 countries.
Funding
Abstract
Angiogenesis is the process by which blood vessels form from pre-existing vessels. It plays a key role in many biological processes, including embryonic development and wound healing, and contributes to many diseases including cancer and rheumatoid arthritis. The structure of the resulting vessel networks determines their ability to deliver nutrients and remove waste products from biological tissues. Here we simulate the Anderson-Chaplain model of angiogenesis at different parameter values and quantify the vessel architectures of the resulting synthetic data. Specifically, we propose a topological data analysis (TDA) pipeline for systematic analysis of the model. TDA is a vibrant and relatively new field of computational mathematics for studying the shape of data. We compute topological and standard descriptors of model simulations generated by different parameter values. We show that TDA of model simulation data stratifies parameter space into regions with similar vessel morphology. The methodologies proposed here are widely applicable to other synthetic and experimental data including wound healing, development, and plant biology.
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