Journal Club

genetic design automation

Genetic Design Automation

Genetic Design Automation: Proof of Concept This is an impressive paper that gives the impression that genetic design automation is within reach. The paper builds on a number of previous results spanning a range of disciplines. They take advantage of...

Feedback Limits Cell Division Variability

Feedback Limits Cell Division Variability

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...

Entrainment of a genetic oscillator

Entrainment of a genetic oscillator

This paper from Bill Mather group in the Physics Department at Virginia Tech shows how a genetic oscillator responds to noisy signals. The authors show that the oscillator gets entrained despite the noise affecting the input signal. This is a...

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...

Minimal Cell Cycle

Minimal Cell Cycle

This is a great example of a paper where synthetic biology meets systems biology. The authors developed a minimal cell cycle regulatory network by engineering a synthetic CDK. To simplify the cell cycle control machinery, a cassette expressing a fusion of cdc13 and cdc2under...

Big data reproducibility issues

Big data reproducibility issues

This piece explains the inherent challenge of providing statistical significant results out of high dimensional data sets. It also suggests a number of strategies to mitigate the problem.

Bacterial tape recorder

Bacterial tape recorder

This paper describes a bacterial tape recorder. E.coli engineered to be a bacterial tape recorder by allowing it change its genome in response to chemical signals. This is one of these mind-blowing papers that the Lu’s lab is known for. It’s...

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