Coupling vs decoupling approaches for PDE/ODE systems modeling intercellular signaling

DOI10.1016/J.JCP.2016.03.020zbMATH Open1349.92049arXiv1603.02744OpenAlexW2294307612MaRDI QIDQ2375147FDOQ2375147

Authors: T. Carraro, E. Friedmann, D. Gerecht 

Publication date: 5 December 2016

Published in: Journal of Computational Physics (Search for Journal in Brave)

Abstract: We consider PDE/ODE systems for the simulation of intercellular signaling in multicellular environments. The intracellular processes for each cell described here by ODEs determine the long-time dynamics, but the PDE part dominates the solving effort. Thus, it is not clear if commonly used decoupling methods can outperform a coupling approach. Based on a sensitivity analysis, we present a systematic comparison between coupling and decoupling approaches for this class of problems and show numerical results. For biologically relevant configurations of the model, our quantitative study shows that a coupling approach performs much better than a decoupling one.

Full work available at URL: https://arxiv.org/abs/1603.02744

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zbMATH Keywords

sensitivity analysismultilevel preconditionerintercellular signalingcoupled PDE/ODE systems

Mathematics Subject Classification ID

Computational methods for problems pertaining to biology (92-08) Cell biology (92C37) Numerical solution of discretized equations for initial value and initial-boundary value problems involving PDEs (65M22)

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Cited In (4)

• Global solutions for a path-dependent hybrid system of differential equations under parabolic signal
• On fitting of mathematical models of cell signaling pathways using adjoint systems
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• Long time behavior of a parabolic \(p\)-Laplacian equation coupled to a compartmental ODE system with an induction threshold phenomenon

Uses Software

• UMFPACK
• deal.ii

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