Literature DB >> 33849339

Incorporating domain growth into hybrid methods for reaction-diffusion systems.

Cameron A Smith1, Christian A Yates1.   

Abstract

Reaction-diffusion mechanisms are a robust paradigm that can be used to represent many biological and physical phenomena over multiple spatial scales. Applications include intracellular dynamics, the migration of cells and the patterns formed by vegetation in semi-arid landscapes. Moreover, domain growth is an important process for embryonic growth and wound healing. There are many numerical modelling frameworks capable of simulating such systems on growing domains; however, each of these may be well suited to different spatial scales and particle numbers. Recently, spatially extended hybrid methods on static domains have been produced to bridge the gap between these different modelling paradigms in order to represent multi-scale phenomena. However, such methods have not been developed with domain growth in mind. In this paper, we develop three hybrid methods on growing domains, extending three of the prominent static-domain hybrid methods. We also provide detailed algorithms to allow others to employ them. We demonstrate that the methods are able to accurately model three representative reaction-diffusion systems accurately and without bias.

Entities:  

Keywords:  domain growth; hybrid methods; reaction–diffusion

Mesh:

Year:  2021        PMID: 33849339      PMCID: PMC8086939          DOI: 10.1098/rsif.2020.1047

Source DB:  PubMed          Journal:  J R Soc Interface        ISSN: 1742-5662            Impact factor:   4.118


  36 in total

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Authors:  Mark B Flegg; S Jonathan Chapman; Radek Erban
Journal:  J R Soc Interface       Date:  2011-10-19       Impact factor: 4.118

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Authors:  Radek Erban; S Jonathan Chapman
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6.  Sequestration of CaMKII in dendritic spines in silico.

Authors:  Shahid Khan; Yixiao Zou; Asma Amjad; Ailia Gardezi; Carolyn L Smith; Christine Winters; Thomas S Reese
Journal:  J Comput Neurosci       Date:  2011-04-14       Impact factor: 1.621

7.  Revisiting the Fisher-Kolmogorov-Petrovsky-Piskunov equation to interpret the spreading-extinction dichotomy.

Authors:  Maud El-Hachem; Scott W McCue; Wang Jin; Yihong Du; Matthew J Simpson
Journal:  Proc Math Phys Eng Sci       Date:  2019-09-04       Impact factor: 2.704

Review 8.  Cranial neural crest migration: new rules for an old road.

Authors:  Paul M Kulesa; Caleb M Bailey; Jennifer C Kasemeier-Kulesa; Rebecca McLennan
Journal:  Dev Biol       Date:  2010-04-23       Impact factor: 3.582

9.  Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades.

Authors:  Nick I Markevich; Jan B Hoek; Boris N Kholodenko
Journal:  J Cell Biol       Date:  2004-01-26       Impact factor: 10.539

10.  Convergence of methods for coupling of microscopic and mesoscopic reaction-diffusion simulations.

Authors:  Mark B Flegga; Stefan Hellander; Radek Erban
Journal:  J Comput Phys       Date:  2015-05-15       Impact factor: 3.553

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