Presentation

Scheme of the global project of a GDA tool for synthetic biology, based on electronic languages.

Tutorial

A video tutorial of the automated model generator which was record for iGEM 2011 is available on Youtube. Only minor graphical modifications on the interface were done since this video.

Downloads

Automated model generator

You can download the software at this link :File:Model_Generatorv0.1.zip.
Compatibility : Windows XP or superior.
After entering the system, this software generates different models files. However, to simulate the system, Dolphin SMASH is requiered.

Models files of three biosystems

microRNAs detector

The model files for the biosystem from Xie et al. can be download at this link: File:miR Detector.zip

Reference: Z. Xie, L. Wroblewska, L. Prochazka, R. Weiss, and Y. Benenson, “Multi-Input RNAi-Based Logic Circuit for Identification of Specific Cancer Cells,” Science, vol. 333, pp. 1307-1311, 2011.

Biological half-adder

The model files for the biosystem from Ausländer et al. can be download at this link: File:Half-adder.zip

Reference: S. Ausländer, D. Ausländer, M. Müller, M. Wieland, and M. Fussenegger, “Programmable single-cell mammalian biocomputers.,” Nature, vol. 487, no. 7405, pp. 123–7, Jul. 2012.

Biological oscillator

The model files for the biosystem from Stricker et al. can be download at this link: File:Oscillator.zip

Reference: J. Stricker, S. Cookson, M. R. Bennett, W. H. Mather, L. S. Tsimring, and J. Hasty, “A fast, robust and tunable synthetic gene oscillator.,” Nature, vol. 456, no. 7221, pp. 516–9, Nov. 2008.

CAD Tools for Synthetic Biology

Sommaire