Mathematical aspects of the regulation of gene transcription by promoters

DOI10.1016/J.MBS.2016.11.007MaRDI QIDQ730292zbMATH OpenOpenAlexWikidataFDO

Authors Vladimir P. Zhdanov

Publication date 27 December 2016

Published in Mathematical Biosciences (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.mbs.2016.11.007

zbMATH Keywords

burstsstochastic kineticstranscriptional regulationlateral interactionstheory of rate processestranscriptional factors

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40)

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Cites work

• A model of gene expression based on random dynamical systems reveals modularity properties of gene regulatory networks
• Stochastic and delayed stochastic models of gene expression and regulation

Cited in

(15)

• Action at distance along the DNA: a random jump model on enhancer action
• Non-equilibrium thermodynamics of gene expression and transcriptional regulation
• Energy cost and mean dwell times for the activity of promoter with complex structure
• Influence of complex promoter structure on gene expression
• Kinetic characteristics of transcriptional bursting in a complex gene model with cyclic promoter structure
• A two-scale mathematical model for DNA transcription
• Characteristics of promoter architecture-dependent expression noise and bursting kinetics
• A spatiotemporal master equation model of morphogen transport: local accumulation times, noise measurement and diffusion force
• Extended irreversible thermodynamics of gene regulation
• Modeling and analytical solution of free energy of complex promoter structure
• Deciphering environmental signal integration in \(\sigma^{54}\)-dependent promoters with a simple mathematical model
• Mathematical modeling of alternative polyadenylation in the human gene, \(CSTF3\)
• When activators repress and repressors activate: a qualitative analysis of the Shea-Ackers model
• Transcription factor target site search and gene regulation in a background of unspecific binding sites
• Small binding-site clearance delays are not negligible in gene expression modeling

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