modeling

Synthetic Biology Summer Schools

For graduate students interested in getting intensive training in synthetic biology, there are several summer schools worth considering: CSHL Summer School in Synthetic Biology: This program spans 2 weeks and combines lectures and intensive lab experience. Application deadline is April...

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...

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...

Testing of a New Integrated Model of the Yeast START Transition

Testing of a New Integrated Model of the Yeast START Transition

We propose a new model of the yeast start transition. We tested the accuracy of the model by simulating various mutants not described in the literature. The cell cycle is composed of bistable molecular switches that govern the transitions between...

Reverse engineering and identification in systems biology: strategies, perspectives and challenges

Reverse engineering and identification in systems biology: strategies, perspectives and challenges

This is a very extensive review that provides many interesting perspectives on the difficult problem of reverse engineering of gene networks. In particular, it draws a lot of connections with disciplines outside of the life sciences.

A Whole-Cell Computational Model Predicts Phenotype from Genotype

A Whole-Cell Computational Model Predicts Phenotype from Genotype

Understanding how complex phenotypes arise from individual molecules and their interactions is a primary challenge in biology that computational approaches are poised to tackle. We report a whole-cell computational model of the life cycle of the human pathogen Mycoplasma genitalium that includes...

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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