Stochastic hybrid models of gene regulatory networks -- a PDE approach

DOI10.1016/j.mbs.2018.09.009zbMath1412.35344arXiv1803.10958OpenAlexW2810319892WikidataQ91654336 ScholiaQ91654336MaRDI QIDQ669087

Verena Wolf, Pavel Kurasov, Delio Mugnolo, Alexander Lück

Publication date: 20 March 2019

Published in: Mathematical Biosciences (Search for Journal in Brave)

Full work available at URL: https://arxiv.org/abs/1803.10958

zbMATH Keywords

gene regulatory networkshybrid stochastic model

Mathematics Subject Classification ID

PDEs in connection with biology, chemistry and other natural sciences (35Q92) Inverse problems for PDEs (35R30) Numerical analysis or methods applied to Markov chains (65C40) Genetics and epigenetics (92D10)

Related Items (10)

Exact and WKB-approximate distributions in a gene expression model with feedback in burst frequency, burst size, and protein stability ⋮ Abstraction-guided truncations for stationary distributions of Markov population models ⋮ Postponing production exponentially enhances the molecular memory of a stochastic switch ⋮ Conformal Quantitative Predictive Monitoring of STL Requirements for Stochastic Processes ⋮ Application of the Goodwin model to autoregulatory feedback for stochastic gene expression ⋮ Analytic solutions for stochastic hybrid models of gene regulatory networks ⋮ Push-forward method for piecewise deterministic biochemical simulations ⋮ Dimensionality reduction via path integration for computing mRNA distributions ⋮ Path integral approach to generating functions for multistep post-transcription and post-translation processes and arbitrary initial conditions ⋮ Steady-state fluctuations of a genetic feedback loop with fluctuating rate parameters using the unified colored noise approximation

Uses Software

• HRSSA
• CERENA
• SHAVE

Cites Work

• Unnamed Item
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• Stochastic modeling and numerical simulation of gene regulatory networks with protein bursting
• Approximation and inference methods for stochastic biochemical kinetics—a tutorial review
• Stochastic hybrid systems for studying biochemical processes
• Inexact Uniformization Method for Computing Transient Distributions of Markov Chains
• Decomposition and tunability of expression noise in the presence of coupled feedbacks
• On the solution of nonlinear hyperbolic differential equations by finite differences

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