Block-tridiagonal state-space realization of chemical master equations: a tool to compute explicit solutions

DOI10.1016/J.CAM.2015.10.008MaRDI QIDQ898966zbMATH OpenOpenAlexFDO

Authors Francesco Carravetta, Gabriella Mavelli, P. Palumbo, Alessandro Borri

Publication date 21 December 2015

Published in Journal of Computational and Applied Mathematics (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.cam.2015.10.008

zbMATH Keywords

chemical master equationMarkov processessystems biology

Mathematics Subject Classification ID

Classical flows, reactions, etc. in chemistry (92E20)

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• Expokit
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Cited in

(15)

• Improving formulas for the eigenvalues of finite block-Toeplitz tridiagonal matrices
• On a stochastic approach to model the double phosphorylation/dephosphorylation cycle
• Finite state projection for approximating the stationary solution to the chemical master equation using reaction rate equations
• Tumour growth control: analysis of alternative approaches
• State space truncation with quantified errors for accurate solutions to discrete chemical master equation
• A graph-based approach for the approximate solution of the chemical master equation
• On the characteristic polynomial, eigenvalues for block tridiagonal matrices
• Accurate chemical master equation solution using multi-finite buffers
• The high-dimensional matrix equation for biochemical reaction systems
• A dynamical low-rank approach to solve the chemical master equation for biological reaction networks
• On the qualitative behaviour of oscillating biochemical systems: the stochastic approach
• Mixture distributions in a stochastic gene expression model with delayed feedback: a WKB approximation approach
• Solving the chemical master equation for monomolecular reaction systems analytically
• Solving the chemical master equation by a fast adaptive finite state projection based on the stochastic simulation algorithm
• A modified uniformization method for the solution of the chemical master equation

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Uses Software

• Expokit

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