stochastic model

Feedback Limits Cell Division Variability

Feedback Limits Cell Division Variability

Noisy foresight

Twenty years ago, I was just a boy with a crazy dream of building stochastic models of the noise affecting the expression of genes in living cells. Back in the 90s this idea sounded like an heresy. The dominant paradigm...

Noise in synthetic genetic oscillators

Noise in synthetic genetic oscillators

This paper focuses on characterizing the stochastic dynamics of previously described synthetic genetic oscillators. It is a very nice combination of experimental and computational work. The computational aspect includes both image analysis and parameter estimation. They breakdown the noise into different...

Modeling a Minimal CDK Network

Modeling a Minimal CDK Network

This paper reports a computational analysis of the minimal CDK network engineered in fission yeast (doi:10.1038/nature09543). It had been observed that a Cdk-inhibitory mechanism working through tyrosine phosphorylation of the kinase subunit, which is essential for modern fission yeast, is dispensable...

leave it to chance cover

Leave it to chance or not

Carolyn Beans wrote a blog post about our project to develop stochastic models of the regulatory network controlling cell division.  She was particularly interested in aspects of cell physiology that are affected by random events and how cells manage to...

Stochastic modeling of the cell cycle goes on…

A couple of weeks ago, we received the renewal of the NIH grant funding our collaboration with John Tyson to develop stochastic models of the regulatory network controlling the cell cycle in yeast. This is the third funding cycle of...

Parameterization of a Stochastic Model of Gene Expression from Adaptive Imaging Cytometry Data

Parameterization of a Stochastic Model of Gene Expression from Adaptive Imaging Cytometry Data

Supplementary material to a manuscript under review. The manuscript can be downloaded from the link below. 

Abstract

Recent decades have yielded an understanding of cellular behavior as arising from a complicated soup of noisy molecular interactions. Systems biologists [...]

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Measurement and modeling of transcriptional noise in the cell cycle regulatory network

Measurement and modeling of transcriptional noise in the cell cycle regulatory network

Fifty years of genetic and molecular experiments have revealed a wealth of molecular interactions involved in the control of cell division. In light of the complexity of this control system, mathematical modeling has proved useful in analyzing biochemical hypotheses that...

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