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Revision as of 14:07, 24 September 2012
Projects
Our projects include Biosearch and Biodesign. Biosearch is an iPhone app which substantially increases the efficiency of searching biobricks in partsregistry.org. Biodesign is a graphics editing application specific to synthetic biology for both iPhone and iPad. Both of them combine efficiency with portability, showing that a new era of mobile biology researching is coming.
Introduction of Tinkercell TinkerCell is a computer-aided design software tool for synthetic biology. It combines visual interface with programing API (Python, Octave, C, Ruby) and allows users to share their code with each other via a central repository. Since synthetic biology is a rapidly evolving field, three issues were taken into consideration when design TinkerCell. First, modeling techniques in biology are still at a developing stage; second, experimental techniques are constantly evolving, especially automation and directed evolution method; third, databases of biological components are still maturing. TinkerCell is designed with the anticipation that the future of synthetic biology will be an intricate interplay between a variety of experimental techniques, databases that store results from experiments, and mathematical models explaining different aspects of the experiments. It is too much to have many functions in TinkerCell from the start. So TinkerCell uses a flexible plug-in framework, which will allow others to contribute new functions to TinkerCell. The plug-ins can be written in C, C++, Python, or Octave. Other languages, e.g. Java, might also get added to this list. The basic idea behind ThinkerCell is to represent a diagram that is detailed enough so that it can be mapped to models or experimental understanding of the system. ThinkerCell enables that capability in software. The purpose of TinkerCell’s plugin interface is to welcome contributions from the community. Additionally, the TinkerCell source code is open-source (BSD) and the application itself is free of charge. All this is intend to make TinkerCell open to community. Reference:www.tinkercell.com
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