systems biology

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 15th.  SSBSS 2017:The Synthetic and Systems Biology Summer School (SSBSS) is a full-immersion five-day residential […]

Apply to Q-Bio Summer School

There is still time to apply to the 2016 Q-Bio Summer School. Applications are due on Monday, February 16 at 11:59pm (MST). The application requires a CV and a 1-page statement of interest in the summer school (combined into a single .pdf). Scholarships are available. To apply now, please visit the Q-Bio website: https://www.openconf.org/qbioss2016/openconf.php The […]

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 the control of the cdc13 regulatory elements was integrated into the genome. They show that oscillation of a […]

Parameter estimation at the whole cell level

This paper raises a number of interesting issues relative to the estimation of parameters of whole-cell models. The challenge here is obviously the underdetermination of the problem when the number of parameters is very large. This challenge calls both for the development of new parameter estimation algorithms and for innovative software implementations. This paper describes […]

Cell Cycle Model

cell cycle regulator mRNA

Cell cycle model: a noisy yet robust network A cell cycle model can help better understand the property of this complex regulatory network. The cell cycle is the process by which a growing cell replicates its genome and partitions the two copies of each chromosome to two daughter cells at division. It is of utmost […]

Adaptive Imaging Cytometry

The use of microfluidics in live cell imaging allows the acquisition of dense time-series from individual cells that can be perturbed through computer-controlled changes of growth medium. Systems and synthetic biologists frequently perform gene expression studies that require changes in growth conditions to characterize the stability of switches, the transfer function of a genetic device, […]

Publishing preprint on adaptive imaging cytometry using Figshare

Today we submitted to PLoS ONE a manuscript entitled “Adaptive imaging cytometry to estimate parameters of gene networks models in systems and synthetic biology“. The journal has a new data sharing policy that encourages authors to deposit data in a public repository. We uploaded on Figshare the raw data that did not fit in the online […]