Relating continuous and discrete PEPA models of signalling pathways

DOI10.1016/J.TCS.2008.04.012MaRDI QIDQ953546zbMATH OpenOpenAlexFDO

Authors Nil Geisweiller, Jane Hillston, Marco Stenico

Publication date 6 November 2008

Published in Theoretical Computer Science (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.tcs.2008.04.012

zbMATH Keywords

ODEsPEPACTMCKurtz's theorem

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Cell biology (92C37) Models and methods for concurrent and distributed computing (process algebras, bisimulation, transition nets, etc.) (68Q85)

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Cites work

• Application of a stochastic name-passing calculus to representation and simulation of molecular processes
• Computational Methods in Systems Biology
• Solutions of ordinary differential equations as limits of pure jump markov processes
• Stochastic concurrent constraint programming and differential equations

Cited in

(17)

• Hybrid dynamics of stochastic programs
• A fluid analysis framework for a Markovian process algebra
• On the approximation of stochastic concurrent constraint programming by master equation
• Some investigations concerning the CTMC and the ODE model derived from bio-PEPA
• A semantic equivalence for Bio-PEPA based on discretisation of continuous values
• Improved continuous approximation of PEPA models through epidemiological examples
• Dynamical Systems and Stochastic Programming: To Ordinary Differential Equations and Back
• Bio-PEPA: A framework for the modelling and analysis of biological systems
• Modelling biological compartments in bio-PEPA
• Fluid analysis for a PEPA model
• Fundamental results on the reactionâdiffusion equations associated with a PEPA model
• Fluid computation of passage-time distributions in large Markov models
• Equivalences for a biological process algebra
• Modelling patterns of gene regulation in the bond-calculus
• Exact fluid lumpability in Markovian process algebra
• Probabilistic approximations of ODEs based bio-pathway dynamics
• On reaction-diffusion equations derived from a PEPA model

Describes a project that uses

Uses Software

• PEPA

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