Bursting noise in gene expression dynamics: linking microscopic and mesoscopic models

Journal of the Royal Society, Interface
Yen Ting Lin, Tobias Galla

Abstract

The dynamics of short-lived mRNA results in bursts of protein production in gene regulatory networks. We investigate the propagation of bursting noise between different levels of mathematical modelling and demonstrate that conventional approaches based on diffusion approximations can fail to capture bursting noise. An alternative coarse-grained model, the so-called piecewise deterministic Markov process (PDMP), is seen to outperform the diffusion approximation in biologically relevant parameter regimes. We provide a systematic embedding of the PDMP model into the landscape of existing approaches, and we present analytical methods to calculate its stationary distribution and switching frequencies.

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Citations

Apr 28, 2017·PloS One·Johannes FalkBarbara Drossel
Mar 27, 2018·PloS One·Sayuri Katharina Hortsch, Andreas Kremling
Mar 30, 2018·Bulletin of Mathematical Biology·Ryan SudermanWilliam S Hlavacek
Dec 6, 2017·Scientific Reports·Ching-Cher Sanders YanChao-Ping Hsu
Feb 2, 2018·Journal of the Royal Society, Interface·Yen Ting Lin, Nicolas E Buchler
Sep 11, 2019·Molecular Biology and Evolution·Lei SunSebastian Bonhoeffer
Apr 27, 2018·Bulletin of Mathematical Biology·Pavol BokesAbhyudai Singh
Jul 1, 2019·The Journal of Chemical Physics·Yen Ting LinWilliam S Hlavacek
Feb 17, 2018·PLoS Computational Biology·Yen Ting LinDavit A Potoyan
Apr 25, 2018·PloS One·Marc MendlerBarbara Drossel
Jan 27, 2021·Journal of Mathematical Biology·Pavel KurasovVerena Wolf

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