Path integral approach to generating functions for multistep post-transcription and post-translation processes and arbitrary initial conditions

DOI10.1007/S00285-019-01426-4zbMATH Open1427.92038arXiv1810.12781OpenAlexW2972768646WikidataQ90070424 ScholiaQ90070424MaRDI QIDQ2007696FDOQ2007696

Jaroslav Albert

Publication date: 22 November 2019

Published in: Journal of Mathematical Biology (Search for Journal in Brave)

Abstract: Stochastic fluctuations in the copy number of gene products have perceivable effects on the functioning of gene regulatory networks (GRN). The Master equation (ME) provides a theoretical basis for studying such effects. However, solving the ME can be a task that ranges from simple to difficult to impossible using conventional methods. Therefore, discovering new techniques for solving the ME is an important part of research on stochastic GRN. In this paper, we present a novel approach to obtaining the generating function (GF), which contains the same information as the ME, for a one gene system that includes multi-step post-transcription and post-translation processes. The novelty of the approach lies in the separation of the mRNAs from proteins. The GF for the mRNAs is obtained using a formalism involving operators and vector states. Using the same formalism, the GF for the proteins is solved for a particular path taken by all mRNAs in the time-copy number plane; then, the GF is summed over all possible paths. We prove a theorem that shows the summation of all paths to be equivalent to an equation similar to the ME for the mRNAs. On a system with six gene products in total and randomly selected initial conditions, we confirm the validity of our results by comparing them with Gillespie simulations.

Full work available at URL: https://arxiv.org/abs/1810.12781

zbMATH Keywords

generating functionmaster equationstochastic gene expressionpath integral

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Systems biology, networks (92C42)

Cites Work

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Cited In (4)

• Dimensionality reduction via path integration for computing mRNA distributions
• Solving the chemical master equation for monomolecular reaction systems and beyond: a Doi-Peliti path integral view
• Mixture distributions in a stochastic gene expression model with delayed feedback: a WKB approximation approach
• Stationary and Time-Dependent Molecular Distributions in Slow-Fast Feedback Circuits

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