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 …
Frequency domain analysis of fluctuations of mRNA and protein copy numbers within a cell lineage: theory and experimental validation
The stochasticity of gene expression is manifested in the fluctuations of messenger
ribonucleic acid and protein copy numbers within a cell lineage over time. While data of this …
ribonucleic acid and protein copy numbers within a cell lineage over time. While data of this …
Small protein number effects in stochastic models of autoregulated bursty gene expression
A stochastic model of autoregulated bursty gene expression by Kumar et al.[Phys. Rev. Lett.
113, 268105 (2014)] has been exactly solved in steady-state conditions under the implicit …
113, 268105 (2014)] has been exactly solved in steady-state conditions under the implicit …
[HTML][HTML] Solving the time-dependent protein distributions for autoregulated bursty gene expression using spectral decomposition
In this study, we obtain an exact time-dependent solution of the chemical master equation
(CME) of an extension of the two-state telegraph model describing bursty or non-bursty …
(CME) of an extension of the two-state telegraph model describing bursty or non-bursty …
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 …
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 …
Dynamical phase diagram of an auto-regulating gene in fast switching conditions
While the steady-state behavior of stochastic gene expression with auto-regulation has been
extensively studied, its time-dependent behavior has received much less attention. Here …
extensively studied, its time-dependent behavior has received much less attention. Here …
Single-cell stochastic gene expression kinetics with coupled positive-plus-negative feedback
Here we investigate single-cell stochastic gene expression kinetics in a minimal coupled
gene circuit with positive-plus-negative feedback. A triphasic stochastic bifurcation is …
gene circuit with positive-plus-negative feedback. A triphasic stochastic bifurcation is …
Kinetic foundation of the zero-inflated negative binomial model for single-cell RNA sequencing data
C Jia - SIAM Journal on Applied Mathematics, 2020 - SIAM
Single-cell RNA sequencing data have complex features such as dropout events,
overdispersion, and high-magnitude outliers, resulting in complicated probability …
overdispersion, and high-magnitude outliers, resulting in complicated probability …