A solver for the stochastic master equation applied to gene regulatory networks

DOI10.1016/j.cam.2006.02.053zbMath1121.65009OpenAlexW2008206597MaRDI QIDQ885922

Shev MacNamara, Lucia Santoso, Markus Hegland, Hilary S. Booth, Conrad J. Burden

Publication date: 14 June 2007

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.2006.02.053

zbMATH Keywords

sparse gridsgene regulatory networkssystems biologystochastic master equations

Mathematics Subject Classification ID

Computational methods in Markov chains (60J22) Applications of statistics to biology and medical sciences; meta analysis (62P10) Stochastic ordinary differential equations (aspects of stochastic analysis) (60H10) Numerical analysis or methods applied to Markov chains (65C40) Ordinary differential equations and systems with randomness (34F05) Numerical solutions to stochastic differential and integral equations (65C30) Genetics and epigenetics (92D10)

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Uses Software

• Expokit

Cites Work

• Bistability and switching in the lysis/lysogeny genetic regulatory network of bacteriophage \(\lambda\)
• A multiple time interval finite state projection algorithm for the solution to the chemical master equation
• Aggregation/Disaggregation Methods for Computing the Stationary Distribution of a Markov Chain
• Stochastic Complementation, Uncoupling Markov Chains, and the Theory of Nearly Reducible Systems
• Expokit
• Aggregation of Variables in Dynamic Systems
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