A local polynomial moment approximation for compartmentalized biochemical systems
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Publication:6154142
DOI10.1016/J.MBS.2023.109110arXiv2306.09186OpenAlexW4389081032MaRDI QIDQ6154142FDOQ6154142
Authors: Tommaso Bianucci, Christoph Zechner 
Publication date: 14 February 2024
Published in: Mathematical Biosciences (Search for Journal in Brave)
Abstract: Compartmentalised biochemical reactions are a ubiquitous building block of biological systems. The interplay between chemical and compartmental dynamics can drive rich and complex dynamical behaviors that are difficult to analyse mathematically -- especially in the presence of stochasticity. We have recently proposed an effective moment equation approach to study the statistical properties of compartmentalised biochemical systems. So far, however, this approach is limited to polynomial rate laws and moreover, it relies on suitable moment closure approximations, which can be difficult to find in practice. In this work we propose a systematic method to derive closed moment dynamics for compartmentalised biochemical systems. We show that for the considered class of systems, the moment equations involve expectations over functions that factorize into two parts, one depending on the molecular content of the compartments and one depending on the compartment number distribution. Our method exploits this structure and approximates each function with suitable polynomial expansions, leading to a closed system of moment equations. We demonstrate the method using three systems inspired by cell populations and organelle networks and study its accuracy across different dynamical regimes.
Full work available at URL: https://arxiv.org/abs/2306.09186
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Cites Work
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- Stochastic reaction networks within interacting compartments
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- Approximation and inference methods for stochastic biochemical kinetics -- a tutorial review
- Stochastic models for structured populations. Scaling limits and long time behavior
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