Différences entre les versions de « CAD Tools for Synthetic Biology »
(Page créée avec « Under construction ... ») |
|||
| Ligne 1 : | Ligne 1 : | ||
Under construction ... | Under construction ... | ||
| + | |||
| + | = Presentation = | ||
| + | |||
| + | = Tutorial = | ||
| + | |||
| + | A video tutorial of the automated model generator which was record for iGEM 2011 is available on [http://www.youtube.com/watch?v=X74PHfemkz4 Youtube] and is insert below. Only minor graphical modifications on the interface were done since this video. | ||
| + | |||
| + | <html><object width="425" height="344"><param name="movie" value=" http://www.youtube.com/v/p6pgxLaDdQw&rel=0&color1=0xb1b1b1&color2=0xcfcfcf&hl=en_US&feature=player_embedded&fs=1 "></param><param name="allowFullScreen" value="true"></param><param name="allowScriptAccess" value="always"></param><embed src=" http://www.youtube.com/v/p6pgxLaDdQw&rel=0&color1=0xb1b1b1&color2=0xcfcfcf&hl=en_US&feature=player_embedded&fs=1 " type="application/x-shockwave-flash" allowfullscreen="true" allowScriptAccess="always" width="425" height="344"></embed></object></html> | ||
| + | |||
| + | = Downloads = | ||
| + | |||
| + | == Automated model generator == | ||
| + | |||
| + | You can download the software at this link :[[:File:Model_Generatorv0.1.zip]].<br /> | ||
| + | Compatibility : Windows XP or superior.<br /> | ||
| + | After entering the system, this software generates different models files. However, to simulate the system, [http://www.dolphin.fr/medal/products/smash/smash_overview.php 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.'' | ||
Version du 22 novembre 2013 à 21:11
Under construction ...
Presentation
Tutorial
A video tutorial of the automated model generator which was record for iGEM 2011 is available on Youtube and is insert below. Only minor graphical modifications on the interface were done since this video.
<html><object width="425" height="344"><param name="movie" value=" http://www.youtube.com/v/p6pgxLaDdQw&rel=0&color1=0xb1b1b1&color2=0xcfcfcf&hl=en_US&feature=player_embedded&fs=1 "></param><param name="allowFullScreen" value="true"></param><param name="allowScriptAccess" value="always"></param><embed src=" http://www.youtube.com/v/p6pgxLaDdQw&rel=0&color1=0xb1b1b1&color2=0xcfcfcf&hl=en_US&feature=player_embedded&fs=1 " type="application/x-shockwave-flash" allowfullscreen="true" allowScriptAccess="always" width="425" height="344"></embed></object></html>
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.