About

SynBioSS (Synthetic Biology Software Suite) is a software suite for the quantitative simulation of biochemical networks using hybrid stochastic algorithms.

We believe that one shouldn’t need to know how to program (or use command-line) to use sophisticated numerical methods. Through this software, we intend to put the most powerful techniques for simulating chemically reacting networks into the hands of biologists (or any scientist who can put them to good scientific use). While intended for simulating biological systems, SynBioSS can also simulate any system modeled as a network of reactions.

In order to achieve this result, we wrapped up state-of-the-art algorithms inside a user friendly graphical interface (GUI) that handles input data, runs the simulations and vividly visualizes simulation results, without requiring any programming background from the user. The designed software does not have any dependence on non-free simulation packages, such as Matlab or Mathematica, however exported results can be processed in a variety of software packages including the aforementioned ones. The software is open and runs on any of the three platforms most used by scientists: Windows, Macintosh, and Linux.

The algorithms used were developed by the Kaznessis research group at the University of Minnesota, Dept. of Chemical Engineering and Materials Science. SynBioSS work is supported by the National Science Foundation (QSB-042582 and a CAREER award, CBET-0644792, to Yiannis Kaznessis). Notable contributions have been made by: Howard Salis, Vassilios Sotiropoulos, Anthony D. Hill, and Jonathan R. Tomshine.

SynBioSS is licensed under the GPL, and may be redistributed under the same terms.

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