Pyecolib: a python library for simulating stochastic cell size dynamics
Recently, there has been an increasing need for tools to simulate cell size regulation due to
important applications in cell proliferation and gene expression. However, implementing the …
important applications in cell proliferation and gene expression. However, implementing the …
Efficient computation of stochastic cell-size transient dynamics
Background How small, fast-growing bacteria ensure tight cell-size distributions remains
elusive. High-throughput measurement techniques have propelled efforts to build modeling …
elusive. High-throughput measurement techniques have propelled efforts to build modeling …
PyEcoLib: a python library for simulating E. coli stochastic size dynamics
Recent studies describe bacterial division as a jump process triggered when it reaches a
fixed number of stochastic discrete events at a rate depending on the cell-size. This …
fixed number of stochastic discrete events at a rate depending on the cell-size. This …
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 …
Predicting stochastic gene expression dynamics in single cells
JT Mettetal, D Muzzey, JM Pedraza… - Proceedings of the …, 2006 - National Acad Sciences
Fluctuations in protein numbers (noise) due to inherent stochastic effects in single cells can
have large effects on the dynamic behavior of gene regulatory networks. Although …
have large effects on the dynamic behavior of gene regulatory networks. Although …
Relevant parameters in models of cell division control
A recent burst of dynamic single-cell data makes it possible to characterize the stochastic
dynamics of cell division control in bacteria. Different models were used to propose specific …
dynamics of cell division control in bacteria. Different models were used to propose specific …
Intrinsic and extrinsic noise of gene expression in lineage trees
P Thomas - Scientific reports, 2019 - nature.com
Cell-to-cell heterogeneity is driven by stochasticity in intracellular reactions and the
population dynamics. While these sources are usually studied separately, we develop an …
population dynamics. While these sources are usually studied separately, we develop an …
A mechanistic stochastic framework for regulating bacterial cell division
How exponentially growing cells maintain size homeostasis is an important fundamental
problem. Recent single-cell studies in prokaryotes have uncovered the adder principle …
problem. Recent single-cell studies in prokaryotes have uncovered the adder principle …
Concentration fluctuations due to size-dependent gene expression and cell-size control mechanisms
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 …
Stochastic Models for Population Dynamics
SX Sun - bioRxiv, 2015 - biorxiv.org
Cell growth and division are stochastic processes that exhibit significant amount of cell-to-
cell variation and randomness. In order to connect single cell division dynamics with overall …
cell variation and randomness. In order to connect single cell division dynamics with overall …