http://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&feed=atom&action=historyTeam:Cambridge/turingpatterns - Revision history2024-03-29T14:25:58ZRevision history for this page on the wikiMediaWiki 1.16.5http://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=47246&oldid=prevTheos at 23:44, 10 August 20102010-08-10T23:44:06Z<p></p>
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</table>Theoshttp://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=47244&oldid=prevTheos at 23:43, 10 August 20102010-08-10T23:43:29Z<p></p>
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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">Investigating the idea of </del>Turing patterns <del class="diffchange diffchange-inline">in cell colonies: Hannah + Paul</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">{{:Team:Cambridge/Templates/headerbar|colour=#96d446|title=Rough notes: </ins>Turing patterns<ins class="diffchange diffchange-inline">}}</ins></div></td></tr>
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</table>Theoshttp://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=23198&oldid=prevHannahcopley: /* Papers on Turing patterns */2010-07-15T15:07:13Z<p><span class="autocomment">Papers on Turing patterns</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</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">Papers on Turing patterns</del>==</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>==<ins class="diffchange diffchange-inline">Own Research</ins>==</div></td></tr>
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<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">Papers on Turing Patterns</ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Original paper from Alan Turing: http://www.dna.caltech.edu/courses/cs191/paperscs191/turing.pdf</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Original paper from Alan Turing: http://www.dna.caltech.edu/courses/cs191/paperscs191/turing.pdf</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">Further information</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">*Different signalling mechanisms have a large amount of cross-talk in bacteria </ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">*The ACL Transcription factor is very specific initially but when bound becomes very non-specific, therefore cannot use two distinct systems in the same bacteria expressing different outputs in the same bacteria, instead 2 different strains would have to be used. This was the reason why a predator-prey model worked in a previous study.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* In the proposed system, there would be an activator and an inhibitor, with different diffusion rates due to the chain length of the molecules. The activator would be a short chain molecule and the inhibitor a long chain molecule so that the inhibitor diffuses slowly.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">*One suggestion is that metabolites could be used as the morphogens in this system, for example metabolites that release or free another signalling molecule from the media, e.g. Arabinose - http://en.wikipedia.org/wiki/Arabinose. </ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Another suggestion was peptide signalling, which uses an AGR-like system. There are 4 proteins, a pre-peptide, a processing, secreting and supporting peptide, and 2 sensing peptides. </ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">Advantages of the Turing Project</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* A new quorum sensing molecular system could be added to the registry which if a proven system could be easily applied to other systems. This would stand alone as an achievement no matter what the other successes or failures.</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Conclusion==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Conclusion==</div></td></tr>
</table>Hannahcopleyhttp://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=22713&oldid=prevPM at 10:02, 15 July 20102010-07-15T10:02:19Z<p></p>
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<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">Investigating the idea of Turing patterns in cell colonies: Hannah + Paul</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Research of the previous Team's work==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Research of the previous Team's work==</div></td></tr>
</table>PMhttp://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=22711&oldid=prevPM: /* Conclusion */2010-07-15T10:00:55Z<p><span class="autocomment">Conclusion</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Mexico 2009 modelled the problem extensively</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Mexico 2009 modelled the problem extensively</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Our project WILL have to reach the implementation stage to go a step further</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Our project WILL have to reach the implementation stage to go a step further</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Some Biobricks exist. A lot of the project will have to do with fine tuning of the system</ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Combine with one of the other projects? Bioluminescence? </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Combine with one of the other projects? Bioluminescence? </div></td></tr>
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</table>PMhttp://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=22677&oldid=prevPM at 09:25, 15 July 20102010-07-15T09:25:25Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Apparently 11 out of 12 ligations were successful - they would have been able to test the system had the final ligation occurred. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Apparently 11 out of 12 ligations were successful - they would have been able to test the system had the final ligation occurred. </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* The only experimental results were those demonstrating that AHL was initiating it's own transcription via the expression of GFP.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* The only experimental results were those demonstrating that AHL was initiating it's own transcription via the expression of GFP.</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>* Seemed to have done quite a lot of modelling work.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>* Seemed to have done quite a lot of <ins class="diffchange diffchange-inline">good </ins>modelling work. <ins class="diffchange diffchange-inline">So will be difficult to go much further on this aspect of the project</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>iGEM 2008 Cambridge team - iBrain</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>iGEM 2008 Cambridge team - iBrain</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">==Papers on Turing patterns==</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Original paper from Alan Turing: http://www.dna.caltech.edu/courses/cs191/paperscs191/turing.pdf</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">==Conclusion==</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Turing patterns have been well described theoretically</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Mexico 2009 modelled the problem extensively</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Our project WILL have to reach the implementation stage to go a step further</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Combine with one of the other projects? Bioluminescence? </ins></div></td></tr>
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</table>PMhttp://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=22662&oldid=prevPM: /* Research of the previous Team's work */2010-07-15T09:10:14Z<p><span class="autocomment">Research of the previous Team's work</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Research of the previous Team's work==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Research of the previous Team's work==</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Apparently 11 out of 12 ligations were successful - they would have been able to test the system had the final ligation occurred. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Apparently 11 out of 12 ligations were successful - they would have been able to test the system had the final ligation occurred. </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* The only experimental results were those demonstrating that AHL was initiating it's own transcription via the expression of GFP.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* The only experimental results were those demonstrating that AHL was initiating it's own transcription via the expression of GFP.</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Seemed to have done quite a lot of modelling work.</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>iGEM 2008 Cambridge team - iBrain</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>iGEM 2008 Cambridge team - iBrain</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</div></td></tr>
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</table>PMhttp://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=22657&oldid=prevPM at 09:03, 15 July 20102010-07-15T09:03:26Z<p></p>
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<td colspan='2' style="background-color: white; color:black;">Revision as of 09:03, 15 July 2010</td>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Research of the previous Team's work<del class="diffchange diffchange-inline">: </del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">==</ins>Research of the previous Team's work<ins class="diffchange diffchange-inline">==</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>iGEM Mexico 2007 </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>iGEM Mexico 2007 </div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>iGEM 2008 Cambridge team - iBrain</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>iGEM 2008 Cambridge team - iBrain</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</div></td></tr>
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</table>PMhttp://2010.igem.org/wiki/index.php?title=Team:Cambridge/turingpatterns&diff=22655&oldid=prevHannahcopley: New page: Research of the previous Team's work: iGEM Mexico 2007 * Project Failed * Admitted were underfunded, no results shown iGEM Mexico 2009 * Apparently 11 out of 12 ligations were success...2010-07-15T09:02:32Z<p>New page: Research of the previous Team's work: iGEM Mexico 2007 * Project Failed * Admitted were underfunded, no results shown iGEM Mexico 2009 * Apparently 11 out of 12 ligations were success...</p>
<p><b>New page</b></p><div>Research of the previous Team's work: <br />
<br />
iGEM Mexico 2007 <br />
* Project Failed<br />
* Admitted were underfunded, no results shown<br />
<br />
iGEM Mexico 2009 <br />
* Apparently 11 out of 12 ligations were successful - they would have been able to test the system had the final ligation occurred. <br />
* The only experimental results were those demonstrating that AHL was initiating it's own transcription via the expression of GFP.<br />
<br />
iGEM 2008 Cambridge team - iBrain<br />
* Planned to use similar quorum sensing mechanisms with the lux operon to detect activity. However, the lux operon would not work in a gram positive organism such as Bacillus therefore only E.coli could work.</div>Hannahcopley