On a stochastic gene expression with pre-mRNA, mRNA and protein contribution

DOI10.1016/J.JTBI.2015.09.012MaRDI QIDQ304584zbMATH OpenOpenAlexWikidataFDO

Authors Andrzej Tomski, Ryszard Rudnicki

Publication date 26 August 2016

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1505.06147

zbMATH Keywords

invariant densitystochastic gene expressionpiece-wise deterministic Markov processpre-mRNA

Mathematics Subject Classification ID

Applications of Markov chains and discrete-time Markov processes on general state spaces (social mobility, learning theory, industrial processes, etc.) (60J20) Biochemistry, molecular biology (92C40)

Abstract: In this paper we develop a model of stochastic gene expression, which is an extension of the model investigated in the paper [T. Lipniacki, P. Paszek, A. Marciniak-Czochra, A.R. Brasier, M. Kimmel, Transcriptional stochasticity in gene expression, J. Theor. Biol. 238 (2006) 348-367]. In our model, stochastic effects still originate from random uctuations in gene activity status, but we precede mRNA production by the formation of pre-mRNA, which enriches classical transcription phase. We obtain a stochastically regulated system of ordinary differential equations (ODEs) describing evolution of pre-mRNA, mRNA and protein levels. We perform mathematical analysis of a long-time behaviour of this stochastic process, identified as a piece-wise deterministic Markov process (PDMP). We check exact results using numerical simulations for the distributions of all three types of particles. Moreover, we investigate the deterministic (adiabatic) limit state of the process, when depending on parameters it can exhibit two specific types of behavior: bistability and the existence of the limit cycle. The latter one is not present when only two kinds of gene expression products are considered.

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Cited in

(13)

• Optimisation of gene expression noise for cellular persistence against lethal events
• Adiabatic reduction of a model of stochastic gene expression with jump Markov process
• The combined effects of Feller diffusion and transcriptional/translational bursting in simple gene networks
• scientific article; zbMATH DE number 4055432 (Why is no real title available?)
• Asymptotic properties of stochastic semigroups with applications to piecewise deterministic Markov processes
• Asymptotic decomposition of substochastic semigroups and applications
• Application of the Goodwin model to autoregulatory feedback for stochastic gene expression
• A Markovian arrival stream approach to stochastic gene expression in cells
• Asymptotic behavior of distributions of mRNA and protein levels in a model of stochastic gene expression
• Analysis of a detailed multi-stage model of stochastic gene expression using queueing theory and model reduction
• With Andrzej Lasota there and back again. The XVII annual lecture dedicated to the memory of Professor Andrzej Lasota
• Mathematical models of gene expression
• A geometric analysis of fast-slow models for stochastic gene expression

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