http://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&feed=atom&action=historyTeam:Lyon-INSA/modelling - Revision history2024-03-29T09:37:04ZRevision history for this page on the wikiMediaWiki 1.16.0http://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=291909&oldid=prevSuxiaohui at 23:23, 26 October 20122012-10-26T23:23:44Z<p></p>
<a href="http://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=291909&oldid=279460">Show changes</a>Suxiaohuihttp://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=279460&oldid=prevXavier69 at 19:22, 25 October 20122012-10-25T19:22:39Z<p></p>
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</table>Xavier69http://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=279231&oldid=prevXavier69 at 18:06, 25 October 20122012-10-25T18:06:06Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>An interesting question when you are more biologist than mathematician (too many complicated equations!!!). And most of our team members are biologists/biochemists… Thus, we tried to explain modelling and our model in a comprehensive way for everyone.<br/><br/></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>An interesting question when you are more biologist than mathematician (too many complicated equations!!!). And most of our team members are biologists/biochemists… Thus, we tried to explain modelling and our model in a comprehensive way for everyone.<br/><br/></div></td></tr>
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</table>Xavier69http://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=279230&oldid=prevXavier69 at 18:05, 25 October 20122012-10-25T18:05:57Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>An interesting question when you are more biologist than mathematician (too many complicated equations!!!). And most of our team members are biologists/biochemists… Thus, we tried to explain modelling and our model in a comprehensive way for everyone.<br/><br/></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>An interesting question when you are more biologist than mathematician (too many complicated equations!!!). And most of our team members are biologists/biochemists… Thus, we tried to explain modelling and our model in a comprehensive way for everyone.<br/><br/></div></td></tr>
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</table>Xavier69http://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=279216&oldid=prevXavier69 at 18:01, 25 October 20122012-10-25T18:01:58Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h1>Modelling</h1></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h1>Modelling</h1></div></td></tr>
</table>Xavier69http://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=269026&oldid=prevAlmiwe at 21:05, 11 October 20122012-10-11T21:05:59Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <div class="boutonOnglet" onclick="window.location='Achievements';">Achievements</div></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <div class="boutonOnglet" onclick="window.location='Achievements';">Achievements</div></div></td></tr>
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</table>Almiwehttp://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=213144&oldid=prevBeryl at 19:51, 26 September 20122012-09-26T19:51:08Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>1) verify the design of the biological system, to be sure that the toggle switch is functional, </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>1) verify the design of the biological system, to be sure that the toggle switch is functional, </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>2) predict the behaviour of this biological system depending on the presence of inducers to give usage guidelines for its industrialization</ul><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>2) predict the behaviour of this biological system depending on the presence of inducers to give usage guidelines for its industrialization</ul><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline"><br></del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> </div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><b>However...</b><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><b>However...</b<ins class="diffchange diffchange-inline">><br</ins>><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>We are working in a <i>Bacillus subtilis</i> strain and some parameters such as XylR values on binding/unbinding kinetics to both inducer and promoter or production rate from P<i>xyl</i> promoter cannot be found in the literature and most of the existing values come from an <i>E. coli</i> strain rather than <i>B. subtilis</i>. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>We are working in a <i>Bacillus subtilis</i> strain and some parameters such as XylR values on binding/unbinding kinetics to both inducer and promoter or production rate from P<i>xyl</i> promoter cannot be found in the literature and most of the existing values come from an <i>E. coli</i> strain rather than <i>B. subtilis</i>. </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Furthermore, we are finishing the biological system construction and its characterization is underway. Parameters will be measured very soon.<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Furthermore, we are finishing the biological system construction and its characterization is underway. Parameters will be measured very soon.<br></div></td></tr>
</table>Berylhttp://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=213123&oldid=prevBeryl at 19:50, 26 September 20122012-09-26T19:50:43Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>2) predict the behaviour of this biological system depending on the presence of inducers to give usage guidelines for its industrialization</ul><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>2) predict the behaviour of this biological system depending on the presence of inducers to give usage guidelines for its industrialization</ul><br></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>We are working in a <i>Bacillus subtilis</i> strain and some parameters such as XylR values on binding/unbinding kinetics to both inducer and promoter or production rate from P<i>xyl</i> promoter cannot be found in the literature and most of the existing values come from an <i>E. coli</i> strain rather than <i>B. subtilis</i>. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>We are working in a <i>Bacillus subtilis</i> strain and some parameters such as XylR values on binding/unbinding kinetics to both inducer and promoter or production rate from P<i>xyl</i> promoter cannot be found in the literature and most of the existing values come from an <i>E. coli</i> strain rather than <i>B. subtilis</i>. </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Furthermore, we are finishing the biological system construction and its characterization is underway. Parameters will be measured very soon.<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Furthermore, we are finishing the biological system construction and its characterization is underway. Parameters will be measured very soon.<br></div></td></tr>
</table>Berylhttp://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=213116&oldid=prevBeryl at 19:50, 26 September 20122012-09-26T19:50:26Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>After the destruction of the biofilm by “Biofilm Killer” bacteria, we want to have the choice to either create a surfactant or establish a positive biofilm, both to prevent the recolonization of the surface by deleterious organisms. The toggle switch is done by environmental conditions : two inducers can be added to select one behaviour or another.<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>After the destruction of the biofilm by “Biofilm Killer” bacteria, we want to have the choice to either create a surfactant or establish a positive biofilm, both to prevent the recolonization of the surface by deleterious organisms. The toggle switch is done by environmental conditions : two inducers can be added to select one behaviour or another.<br></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><div class="petitSsTitre">Biological system to model</div></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><div class="petitSsTitre">Biological system to model</div></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>For this, we have created the following construction, with a double regulation:<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>For this, we have created the following construction, with a double regulation:<br></div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><<del class="diffchange diffchange-inline">h3</del>>Aim of the model:</<del class="diffchange diffchange-inline">h3</del>></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><<ins class="diffchange diffchange-inline">div class="petitSsTitre"</ins>>Aim of the model:</<ins class="diffchange diffchange-inline">div</ins>></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>2) predict the behaviour of this biological system depending on the presence of inducers to give usage guidelines for its industrialization</ul><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>2) predict the behaviour of this biological system depending on the presence of inducers to give usage guidelines for its industrialization</ul><br></div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><<del class="diffchange diffchange-inline">div class="petitSsTitre"</del>>However...</<del class="diffchange diffchange-inline">div</del>></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><<ins class="diffchange diffchange-inline">b</ins>>However...</<ins class="diffchange diffchange-inline">b</ins>></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>We are working in a <i>Bacillus subtilis</i> strain and some parameters such as XylR values on binding/unbinding kinetics to both inducer and promoter or production rate from P<i>xyl</i> promoter cannot be found in the literature and most of the existing values come from an <i>E. coli</i> strain rather than <i>B. subtilis</i>. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>We are working in a <i>Bacillus subtilis</i> strain and some parameters such as XylR values on binding/unbinding kinetics to both inducer and promoter or production rate from P<i>xyl</i> promoter cannot be found in the literature and most of the existing values come from an <i>E. coli</i> strain rather than <i>B. subtilis</i>. </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Furthermore, we are finishing the biological system construction and its characterization is underway. Parameters will be measured very soon.<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Furthermore, we are finishing the biological system construction and its characterization is underway. Parameters will be measured very soon.<br></div></td></tr>
</table>Berylhttp://2012.igem.org/wiki/index.php?title=Team:Lyon-INSA/modelling&diff=213051&oldid=prevBeryl at 19:49, 26 September 20122012-09-26T19:49:01Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> In opposition, in the presence of IPTG, LacI proteins will bind to their ligand, and P<i>lac</i> promoter will be free. So XylR proteins will be overproduced, limiting Sfp and AbrB productions. Thus, there will be no surfactin in the environment, biofilm formation can begin.<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> In opposition, in the presence of IPTG, LacI proteins will bind to their ligand, and P<i>lac</i> promoter will be free. So XylR proteins will be overproduced, limiting Sfp and AbrB productions. Thus, there will be no surfactin in the environment, biofilm formation can begin.<br></div></td></tr>
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</table>Beryl