ArticlePLoS computational biology2013
Chaste: an open source C++ library for computational physiology and biology.
Article in PLoS computational biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 171 papers.
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Who cites it
171 citing papers in PubMed.
- Trial
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- BIWT: a bioinformatics walkthrough for embedding spatial multiomics in agent-based models for virtual cells.Bioinformatics (Oxford, England) · 2025Article
- Article
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- Vertex models capturing subcellular scales in epithelial tissues.PLoS computational biology · 2025Review
- A transient contractile seam promotes epithelial sealing and sequential assembly of body segments.Nature communications · 2025Article
- Numerical accuracy of closed-loop steady state in a zero-dimensional cardiovascular model.Philosophical transactions. Series A, Mathematical, physical, and engineering sciences · 2025Article
- A hybrid computational model of cancer spheroid growth with ribose-induced collagen stiffening.Frontiers in bioengineering and biotechnology · 2025Article
- Building multiscale models with PhysiBoSS, an agent-based modeling tool.Briefings in bioinformatics · 2024Article
111 more citing papers are in PubMed but not listed here.
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Authors and funding
17 authors.
Funding
Abstract
Chaste - Cancer, Heart And Soft Tissue Environment - is an open source C++ library for the computational simulation of mathematical models developed for physiology and biology. Code development has been driven by two initial applications: cardiac electrophysiology and cancer development. A large number of cardiac electrophysiology studies have been enabled and performed, including high-performance computational investigations of defibrillation on realistic human cardiac geometries. New models for the initiation and growth of tumours have been developed. In particular, cell-based simulations have provided novel insight into the role of stem cells in the colorectal crypt. Chaste is constantly evolving and is now being applied to a far wider range of problems. The code provides modules for handling common scientific computing components, such as meshes and solvers for ordinary and partial differential equations (ODEs/PDEs). Re-use of these components avoids the need for researchers to 're-invent the wheel' with each new project, accelerating the rate of progress in new applications. Chaste is developed using industrially-derived techniques, in particular test-driven development, to ensure code quality, re-use and reliability. In this article we provide examples that illustrate the types of problems Chaste can be used to solve, which can be run on a desktop computer. We highlight some scientific studies that have used or are using Chaste, and the insights they have provided. The source code, both for specific releases and the development version, is available to download under an open source Berkeley Software Distribution (BSD) licence at http://www.cs.ox.ac.uk/chaste, together with details of a mailing list and links to documentation and tutorials.
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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.