Mechanisms of cellular mRNA transcript homeostasis
S Berry, L Pelkmans - Trends in Cell Biology, 2022 - cell.com
For most genes, mRNA transcript abundance scales with cell size to ensure a constant
concentration. Scaling of mRNA synthesis rates with cell size plays an important role, with …
concentration. Scaling of mRNA synthesis rates with cell size plays an important role, with …
Studying stochastic systems biology of the cell with single-cell genomics data
Recent experimental developments in genome-wide RNA quantification hold considerable
promise for systems biology. However, rigorously probing the biology of living cells requires …
promise for systems biology. However, rigorously probing the biology of living cells requires …
Interpretable and tractable models of transcriptional noise for the rational design of single-molecule quantification experiments
The question of how cell-to-cell differences in transcription rate affect RNA count
distributions is fundamental for understanding biological processes underlying transcription …
distributions is fundamental for understanding biological processes underlying transcription …
Modelling capture efficiency of single-cell RNA-sequencing data improves inference of transcriptome-wide burst kinetics
Motivation Gene expression is characterized by stochastic bursts of transcription that occur
at brief and random periods of promoter activity. The kinetics of gene expression burstiness …
at brief and random periods of promoter activity. The kinetics of gene expression burstiness …
Concentration fluctuations in growing and dividing cells: Insights into the emergence of concentration homeostasis
Intracellular reaction rates depend on concentrations and hence their levels are often
regulated. However classical models of stochastic gene expression lack a cell size …
regulated. However classical models of stochastic gene expression lack a cell size …
Coupling gene expression dynamics to cell size dynamics and cell cycle events: Exact and approximate solutions of the extended telegraph model
The standard model describing the fluctuations of mRNA numbers in single cells is the
telegraph model which includes synthesis and degradation of mRNA, and switching of the …
telegraph model which includes synthesis and degradation of mRNA, and switching of the …
Analytical time-dependent distributions for gene expression models with complex promoter switching mechanisms
Classical gene expression models assume exponential switching time distributions between
the active and inactive promoter states. However, recent experiments have shown that many …
the active and inactive promoter states. However, recent experiments have shown that many …
Poisson representation: a bridge between discrete and continuous models of stochastic gene regulatory networks
Stochastic gene expression dynamics can be modelled either discretely or continuously.
Previous studies have shown that the mRNA or protein number distributions of some simple …
Previous studies have shown that the mRNA or protein number distributions of some simple …
Assessing markovian and delay models for single-nucleus RNA sequencing
The serial nature of reactions involved in the RNA life-cycle motivates the incorporation of
delays in models of transcriptional dynamics. The models couple a transcriptional process to …
delays in models of transcriptional dynamics. The models couple a transcriptional process to …
Feedback between stochastic gene networks and population dynamics enables cellular decision-making
P Piho, P Thomas - Science Advances, 2024 - science.org
Phenotypic selection occurs when genetically identical cells are subject to different
reproductive abilities due to cellular noise. Such noise arises from fluctuations in reactions …
reproductive abilities due to cellular noise. Such noise arises from fluctuations in reactions …