A dynamical low-rank approach to solve the chemical master equation for biological reaction networks

DOI10.1016/j.jcp.2023.112250MaRDI QIDQ6107088

Carlos F. Lopez, Lukas Einkemmer, Martina Prugger

Publication date: 3 July 2023

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

zbMATH Keywords

chemical reaction networkschemical master equationdynamical low rank approximation

Mathematics Subject Classification ID

Numerical methods for ordinary differential equations (65Lxx) Basic linear algebra (15Axx) Physiological, cellular and medical topics (92Cxx)

Related Items (2)

Full-rank and low-rank splitting methods for the Swift-Hohenberg equation ⋮ Accelerating the simulation of kinetic shear Alfvén waves with a dynamical low-rank approximation

Cites Work

• A dynamical low-rank approach to the chemical master equation
• Boolean network-based analysis of the apoptosis network: irreversible apoptosis and stable surviving
• Attractor analysis of asynchronous Boolean models of signal transduction networks
• A rank-adaptive robust integrator for dynamical low-rank approximation
• An unconventional robust integrator for dynamical low-rank approximation
• A low-rank method for two-dimensional time-dependent radiation transport calculations
• An asymptotic-preserving dynamical low-rank method for the multi-scale multi-dimensional linear transport equation
• A mass, momentum, and energy conservative dynamical low-rank scheme for the Vlasov equation
• A low-rank projector-splitting integrator for the Vlasov-Maxwell equations with divergence correction
• A projector-splitting integrator for dynamical low-rank approximation
• Signaling Networks
• Dynamical Approximation by Hierarchical Tucker and Tensor-Train Tensors
• Interlinked Fast and Slow Positive Feedback Loops Drive Reliable Cell Decisions
• Scale-Free Networks: A Decade and Beyond
• An Efficient Dynamical Low-Rank Algorithm for the Boltzmann-BGK Equation Close to the Compressible Viscous Flow Regime
• Time Integration of Rank-Constrained Tucker Tensors
• A Low-Rank Projector-Splitting Integrator for the Vlasov--Poisson Equation
• Dynamical Low-Rank Integrator for the Linear Boltzmann Equation: Error Analysis in the Diffusion Limit
• Time Integration of Tree Tensor Networks

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