Synthetic Biology
Systems Biology

Optimizing gene synthesis
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Synthetic Biology
Systems Biology

Keeping synthetic biology safe.
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Synthetic Biology
Systems Biology

Play the DNA factory game
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Synthetic Biology
Systems Biology

Designing synthetic DNA molecules.
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Synthetic Biology
Systems Biology

Measuring gene expression in single cells.
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Notes from Synbiobeta San Francisco 2014

Synbiobeta San Francisco 2014 is wrapping up this morning with a networking cruise in the bay that I won’t be able to join because I need to head to the airport in a few hours. This was the first time I could attend a Synbiobeta conference. The event has a very distinctive flavor to it. […]

Parameter estimation preprint

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We just submitted a revised version of a manuscript describing the analysis of data collected using our GenoSIGHT software. The paper shows that this data can be used to estimate parameters of gene network models. This manuscript is under consideration with PLoS Computational Biology. I am relieved that we were able to complete these revisions. […]

Surprisingly popular blog posts

It is a little surprising that the most popular entries ever posted on this blog are related to the use of industrial engineering methods in the context of a biomedical laboratory. 5S Applied to an Academic Lab – an Old Dog Learns New Tricks Using LIMS in an Academic Lab – Why and How? I […]

5S Applied to an Academic Lab – an Old Dog Learns New Tricks

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When I interviewed for my present position in the Peccoud lab at the Virginia Bioinformatics Institute, David Ball gave me a tour of the lab and I immediately noticed that every item on a bench or desk was outlined with yellow tape and labeled. Also, cupboards and drawers had labels denoting their contents. I knew that Dr. Peccoud, had […]

Using LIMS in an Academic Lab – Why and How?

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All laboratories produce something, whether samples or spreadsheets. Ideally, every step in the process of making the product, including the origins of precursors and the physical or digital locations of the products, should be documented. I have worked in seven different academic labs, and they all dealt with this documentation in different ways and with […]

NIH proposal gets amazing score

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The proposal to renew the funding supporting our collaboration with John Tyson was examined by the NIH study section last week. We got a score of 18, which places in the top 2%. At NIH a good score is a small score! This is the best score we got any proposal we submitted to NIH. […]

Ebola Vaccine Update

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The development of vaccines against emerging diseases has been on my radar screen for several years as a potential biomedical applications of GenoCAD. The week has been rich in surprising stories about the development of an Ebola vaccine. The NY Times reported that an Ebola vaccine candidate had been developed 10 years ago. It showed […]

Get our Standard Operating Procedures

Many people have expressed interest in learning more about the way we run the lab after the publication in PLoS Computational Biology of  ”If You Can’t Measure It, You Can’t Manage It“. Initially, we released them on this web site as individual posts for each SOP. That did not work too well. They took too […]

Releasing a list of synthetic biology blogs

I thought it might be useful to compile a list of Synthetic Biology blogs that can be used as alternative sources of information and perspectives complementing academic journals. This list was initially seed with contributions from Nathaniel Gore  and Devin Camenares. It was later expanded by submissions from the community. Do you know another SynBio blog that […]