http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&feed=atom&action=history
Team:KULeuven/Model/Cell Death - Revision history
2024-03-28T15:15:40Z
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Avdmeers at 14:56, 3 October 2008
2008-10-03T14:56:32Z
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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 style="float: right;"></del>[[Image:pictogram_celldeath.png|120px]]<del class="diffchange diffchange-inline"></div></del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[Image:pictogram_celldeath.png|120px<ins class="diffchange diffchange-inline">|right</ins>]]</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Cell Death==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Cell Death==</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><tr style="vertical-align:top;"><td>[11]</td><td style="padding-left:4pt;">L. Wang et al., “Specificity and enzyme kinetics of the quorum-quenching AHL-lactonase,” <span style="font-style:italic;">J. Biol. Chem.</span>, Jan. 2004, p. M311194200. <span class="Z3988" title="url_ver=Z39.88-2004&amp;ctx_ver=Z39.88-2004&amp;rft_id=info%3Adoi/10.1074/jbc.M311194200&amp;rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&amp;rft.genre=article&amp;rft.atitle=Specificity%20and%20enzyme%20kinetics%20of%20the%20quorum-quenching%20AHL-lactonase&amp;rft.jtitle=J.%20Biol.%20Chem.&amp;rft.aufirst=Lian-Hui&amp;rft.aulast=Wang&amp;rft.au=Lian-Hui%20Wang&amp;rft.au=Li-Xing%20Weng&amp;rft.au=Yi-Hu%20Dong&amp;rft.au=Lian-Hui%20Zhang&amp;rft.date=2004&amp;rft.pages=M311194200"></span></td></tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><tr style="vertical-align:top;"><td>[11]</td><td style="padding-left:4pt;">L. Wang et al., “Specificity and enzyme kinetics of the quorum-quenching AHL-lactonase,” <span style="font-style:italic;">J. Biol. Chem.</span>, Jan. 2004, p. M311194200. <span class="Z3988" title="url_ver=Z39.88-2004&amp;ctx_ver=Z39.88-2004&amp;rft_id=info%3Adoi/10.1074/jbc.M311194200&amp;rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&amp;rft.genre=article&amp;rft.atitle=Specificity%20and%20enzyme%20kinetics%20of%20the%20quorum-quenching%20AHL-lactonase&amp;rft.jtitle=J.%20Biol.%20Chem.&amp;rft.aufirst=Lian-Hui&amp;rft.aulast=Wang&amp;rft.au=Lian-Hui%20Wang&amp;rft.au=Li-Xing%20Weng&amp;rft.au=Yi-Hu%20Dong&amp;rft.au=Lian-Hui%20Zhang&amp;rft.date=2004&amp;rft.pages=M311194200"></span></td></tr></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><tr><td colspan="2">&nbsp;</td></tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><tr><td colspan="2">&nbsp;</td></tr></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><tr style="vertical-align:top;"><td>[12]</td><td style="padding-left:4pt;">“Tokyo/AHL assay - IGEM07”; <del class="diffchange diffchange-inline">http</del>://<del class="diffchange diffchange-inline">parts</del>.<del class="diffchange diffchange-inline">mit</del>.<del class="diffchange diffchange-inline">edu/igem07/index.php</del>/Tokyo/AHL_assay.</td></tr></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><tr style="vertical-align:top;"><td>[12]</td><td style="padding-left:4pt;">“Tokyo/AHL assay - IGEM07”; <ins class="diffchange diffchange-inline">https</ins>://<ins class="diffchange diffchange-inline">2007</ins>.<ins class="diffchange diffchange-inline">igem</ins>.<ins class="diffchange diffchange-inline">org</ins>/Tokyo/AHL_assay.</td></tr></div></td></tr>
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Avdmeers
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=51053&oldid=prev
Avdmeers at 12:13, 3 October 2008
2008-10-03T12:13:50Z
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Avdmeers
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=49907&oldid=prev
Maarten: /* ODE's */
2008-10-01T10:38:05Z
<p><span class="autocomment">ODE's</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>====ODE's====</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>====ODE's====</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">todo!!!</del><<del class="diffchange diffchange-inline">br</del>></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><<ins class="diffchange diffchange-inline">html></ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==== Parameters ====</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==== Parameters ====</div></td></tr>
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Maarten
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=44795&oldid=prev
Zeunas: /* Simulations */
2008-09-12T09:02:52Z
<p><span class="autocomment">Simulations</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>=== Simulations ===</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>=== Simulations ===</div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>To simulate the cell death, the input signal TetR is all the time low (5E-5) except from 50000 till 80000 seconds,from 180000 till 190000 seconds and from 250000 till 270000 seconds (0.0125). The left figure shows us that a high input signal will lower the amount of HSL (the HSL will be converted into hydroxy acid by lactonase). This will increase the amount of free LuxR because there is not enough HSL to form the HSL-LuxR complex. During the pulse, the right figure shows us an increase of the amount of CcdB. Whenthe memory switches from state zero to state one, the amount of CIIP22 decreases which makes it possible to produce a small amount of CcdB (background signal). <br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>To simulate the cell death, the input signal TetR is all the time low (5E-5 <ins class="diffchange diffchange-inline">s<sup>-1</sup></ins>) except from 50000 till 80000 seconds,from 180000 till 190000 seconds and from 250000 till 270000 seconds (0.0125 <ins class="diffchange diffchange-inline">s<sup>-1</sup></ins>). The left figure shows us that a high input signal will lower the amount of HSL (the HSL will be converted into hydroxy acid by lactonase). This will increase the amount of free LuxR because there is not enough HSL to form the HSL-LuxR complex. During the pulse, the right figure shows us an increase of the amount of CcdB. Whenthe memory switches from state zero to state one, the amount of CIIP22 decreases which makes it possible to produce a small amount of CcdB (background signal). <br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>When the input signal is low again, the amount of HSL increases. This extra HSL will form with LuxR the complex which lowers the amount of free LuxR. The higher amount of the complex promotes the production of CcdB which increases to a (hopefully) deathly level. <br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>When the input signal is low again, the amount of HSL increases. This extra HSL will form with LuxR the complex which lowers the amount of free LuxR. The higher amount of the complex promotes the production of CcdB which increases to a (hopefully) deathly level. <br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>A new pulse lowers the amount of HSL and the complex and increases the amount of LuxR for the same reasons as before. The second pulse is smal in length and decreases the amount of CcdB only partially. The third pulse is long enough for a total reset of the entire system.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>A new pulse lowers the amount of HSL and the complex and increases the amount of LuxR for the same reasons as before. The second pulse is smal in length and decreases the amount of CcdB only partially. The third pulse is long enough for a total reset of the entire system.</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;">All graphs have amounts (number of molecules in the cell) plotted vs time, measured in seconds. </ins></div></td></tr>
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Zeunas
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=44794&oldid=prev
Zeunas: /* Parameters */
2008-09-12T08:58:04Z
<p><span class="autocomment">Parameters</span></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[http://www.sciencedirect.com/science?_ob=MImg&_imagekey=B6T39-3Y6HKD6-BK-1&_cdi=4941&_user=877992&_orig=search&_coverDate=08%2F30%2F1995&_sk=998379998&view=c&wchp=dGLbVtz-zSkzS&md5=49efd14150c71e668eabdef225220ce3&ie=/sdarticle.pdf This paper] says that synthesis of <del class="diffchange diffchange-inline">even </del>a few molecules of <del class="diffchange diffchange-inline">the shorter </del>CcdB protein is probably lethal.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[http://www.sciencedirect.com/science?_ob=MImg&_imagekey=B6T39-3Y6HKD6-BK-1&_cdi=4941&_user=877992&_orig=search&_coverDate=08%2F30%2F1995&_sk=998379998&view=c&wchp=dGLbVtz-zSkzS&md5=49efd14150c71e668eabdef225220ce3&ie=/sdarticle.pdf This paper] says that <ins class="diffchange diffchange-inline">the </ins>synthesis of <ins class="diffchange diffchange-inline">only </ins>a few molecules of CcdB protein is probably lethal.</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>All references for parameters can be found below, in the new section.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>All references for parameters can be found below, in the new section.</div></td></tr>
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Zeunas
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=44793&oldid=prev
Zeunas: /* Parameters */
2008-09-12T08:54:38Z
<p><span class="autocomment">Parameters</span></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;"><br></ins></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 class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[http://www.sciencedirect.com/science?_ob=MImg&_imagekey=B6T39-3Y6HKD6-BK-1&_cdi=4941&_user=877992&_orig=search&_coverDate=08%2F30%2F1995&_sk=998379998&view=c&wchp=dGLbVtz-zSkzS&md5=49efd14150c71e668eabdef225220ce3&ie=/sdarticle.pdf This paper] says that synthesis of even a few molecules of the shorter CcdB protein is probably lethal.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[http://www.sciencedirect.com/science?_ob=MImg&_imagekey=B6T39-3Y6HKD6-BK-1&_cdi=4941&_user=877992&_orig=search&_coverDate=08%2F30%2F1995&_sk=998379998&view=c&wchp=dGLbVtz-zSkzS&md5=49efd14150c71e668eabdef225220ce3&ie=/sdarticle.pdf This paper] says that synthesis of even a few molecules of the shorter CcdB protein is probably lethal.</div></td></tr>
</table>
Zeunas
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=44792&oldid=prev
Zeunas: /* Parameters */
2008-09-12T08:52:35Z
<p><span class="autocomment">Parameters</span></p>
<table style="background-color: white; color:black;">
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<col class='diff-marker' />
<col class='diff-content' />
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<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 08:52, 12 September 2008</td>
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<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 class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==== Parameters ====</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==== Parameters ====</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline">Remark</del>: <del class="diffchange diffchange-inline">update </del>parameters <del class="diffchange diffchange-inline">to repressive promotor</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">Attention</ins>: <ins class="diffchange diffchange-inline">old system, old </ins>parameters<ins class="diffchange diffchange-inline">!</ins></div></td></tr>
<tr><td colspan="2"> </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: #eee; color:black; font-size: smaller;"><div>{| width=80% style="border: 1px solid #003E81; background-color: #EEFFFF;"</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>{| width=80% style="border: 1px solid #003E81; background-color: #EEFFFF;"</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|+ ''Parameter values (Cell Death)''</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|+ ''Parameter values (Cell Death)''</div></td></tr>
</table>
Zeunas
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=44791&oldid=prev
Zeunas: /* Parameters */
2008-09-12T08:51:51Z
<p><span class="autocomment">Parameters</span></p>
<table style="background-color: white; color:black;">
<col class='diff-marker' />
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<col class='diff-marker' />
<col class='diff-content' />
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<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 08:51, 12 September 2008</td>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 0.00227 s<sup>-1</sup></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 0.00227 s<sup>-1</sup></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| </div></td><td class='diff-marker'> </td><td style="background: #eee; 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>| <del class="diffchange diffchange-inline">[http://www.pubmedcentral.nih.gov/picrender.fcgi?artid=124983&blobtype=pdf link]</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: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| d<sub>CcdB</sub></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| d<sub>CcdB</sub></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 7.7E-5 s<sup>-1</sup></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 7.7E-5 s<sup>-1</sup></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| </div></td><td class='diff-marker'> </td><td style="background: #eee; 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>| <del class="diffchange diffchange-inline">[http://www.ncbi.nlm.nih.gov/pubmed/8022284?dopt=abstract link]</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: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| d<sub>RNA_CcdB</sub></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| d<sub>RNA_CcdB</sub></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 0.00231 s<sup>-1</sup></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 0.00231 s<sup>-1</sup></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| </div></td><td class='diff-marker'> </td><td style="background: #eee; 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>| <del class="diffchange diffchange-inline">[http://www.pubmedcentral.nih.gov/picrender.fcgi?artid=124983&blobtype=pdf link]</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: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| d<sub>HSL</sub></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| d<sub>HSL</sub></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 1.02E-6 s<sup>-1</sup></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 1.02E-6 s<sup>-1</sup></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| </div></td><td class='diff-marker'> </td><td style="background: #eee; 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>| <del class="diffchange diffchange-inline">[http://aem.asm.org/cgi/content/abstract/71/3/1291 link]</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: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>! colspan="4" style="border-bottom: 1px solid #003E81;" | Association/Dissociation/Reaction Rates</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>! colspan="4" style="border-bottom: 1px solid #003E81;" | Association/Dissociation/Reaction Rates</div></td></tr>
<tr><td colspan="2" class="diff-lineno">Line 99:</td>
<td colspan="2" class="diff-lineno">Line 99:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 29 s<sup>-1</sup></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 29 s<sup>-1</sup></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| catalytic transformation of HSL to an hydroxy-acid, lactonase is the enzyme</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| catalytic transformation of HSL to an hydroxy-acid, lactonase is the enzyme</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| <del class="diffchange diffchange-inline">[http://www.jbc.org/cgi/reprint/M311194200v1.pdf link]</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: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>! colspan="4" style="border-bottom: 1px solid #003E81;" | Dissociation Constants</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>! colspan="4" style="border-bottom: 1px solid #003E81;" | Dissociation Constants</div></td></tr>
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<td colspan="2" class="diff-lineno">Line 106:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 1E-6 [M]/L</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 1E-6 [M]/L</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| k<sub>diss</sub> / k<sub>ass</sub> (HSL+LuxR)</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| k<sub>diss</sub> / k<sub>ass</sub> (HSL+LuxR)</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| <del class="diffchange diffchange-inline">[http://jb.asm.org/cgi/content/full/189/11/4127?view=long&pmid=17400743 link]</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: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| K<sub>HSL_LuxR</sub></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| K<sub>HSL_LuxR</sub></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 4.05E-6 [M]/L</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 4.05E-6 [M]/L</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| binding HSL_LuxR on LuxPromotor</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| binding HSL_LuxR on LuxPromotor</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| <del class="diffchange diffchange-inline">[http://parts.mit.edu/igem07/index.php/Tokyo/AHL_assay link]</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: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>! colspan="4" style="border-bottom: 1px solid #003E81;" | Hill Cooperativity</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>! colspan="4" style="border-bottom: 1px solid #003E81;" | Hill Cooperativity</div></td></tr>
<tr><td colspan="2" class="diff-lineno">Line 118:</td>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 2.08</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 2.08</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| </div></td><td class='diff-marker'> </td><td style="background: #eee; 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>| <del class="diffchange diffchange-inline">[http://parts.mit.edu/igem07/index.php/Tokyo/AHL_assay link]</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: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>! colspan="4" style="border-bottom: 1px solid #003E81;" | Transcription Rates</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>! colspan="4" style="border-bottom: 1px solid #003E81;" | Transcription Rates</div></td></tr>
<tr><td colspan="2" class="diff-lineno">Line 135:</td>
<td colspan="2" class="diff-lineno">Line 135:</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 class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[http://www.sciencedirect.com/science?_ob=MImg&_imagekey=B6T39-3Y6HKD6-BK-1&_cdi=4941&_user=877992&_orig=search&_coverDate=08%2F30%2F1995&_sk=998379998&view=c&wchp=dGLbVtz-zSkzS&md5=49efd14150c71e668eabdef225220ce3&ie=/sdarticle.pdf This paper] says that synthesis of even a few molecules of the shorter CcdB protein is probably lethal.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[http://www.sciencedirect.com/science?_ob=MImg&_imagekey=B6T39-3Y6HKD6-BK-1&_cdi=4941&_user=877992&_orig=search&_coverDate=08%2F30%2F1995&_sk=998379998&view=c&wchp=dGLbVtz-zSkzS&md5=49efd14150c71e668eabdef225220ce3&ie=/sdarticle.pdf This paper] says that synthesis of even a few molecules of the shorter CcdB protein is probably lethal.</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;">All references for parameters can be found below, in the new section.</ins></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 class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>=== Models ===</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>=== Models ===</div></td></tr>
</table>
Zeunas
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=44790&oldid=prev
Zeunas: /* Parameters */
2008-09-12T08:46:07Z
<p><span class="autocomment">Parameters</span></p>
<table style="background-color: white; color:black;">
<col class='diff-marker' />
<col class='diff-content' />
<col class='diff-marker' />
<col class='diff-content' />
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<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 08:46, 12 September 2008</td>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 4.05E-6 [M]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 4.05E-6 [M]</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Dissociation constant for HSL-LuxR complex promoter binding</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Dissociation constant for HSL-LuxR complex promoter binding</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| [https://2008.igem.org/Team:KULeuven/Model/CellDeath#References [1<html>]</html>]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| [https://2008.igem.org/Team:KULeuven/Model/CellDeath#References [1<ins class="diffchange diffchange-inline"><html>]</html> [12</ins><html>]</html>]</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Hill (P22 c2)</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Hill (P22 c2)</div></td></tr>
</table>
Zeunas
http://2008.igem.org/wiki/index.php?title=Team:KULeuven/Model/Cell_Death&diff=44789&oldid=prev
Zeunas: /* Parameters */
2008-09-12T08:45:14Z
<p><span class="autocomment">Parameters</span></p>
<table style="background-color: white; color:black;">
<col class='diff-marker' />
<col class='diff-content' />
<col class='diff-marker' />
<col class='diff-content' />
<tr valign='top'>
<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 08:45, 12 September 2008</td>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 2</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 2</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Hill coefficient for HSL-LuxR binding</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Hill coefficient for HSL-LuxR binding</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| [https://2008.igem.org/Team:KULeuven/Model/CellDeath#References [1<html>]</html>]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| [https://2008.igem.org/Team:KULeuven/Model/CellDeath#References [1<ins class="diffchange diffchange-inline"><html>]</html> [12</ins><html>]</html>]</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| k<sub>leaky</sub></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| k<sub>leaky</sub></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 5E-4 s<sup>-1</sup></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| 5E-4 s<sup>-1</sup></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| transcription rate from the hybrid promoter in the '''unactivated''' ON state</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| transcription rate from the hybrid promoter in the '''unactivated''' ON state</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| [https://2008.igem.org/Team:KULeuven/Model/CellDeath#References [1<del class="diffchange diffchange-inline"><html>]</html> [12</del><html>]</html>]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| [https://2008.igem.org/Team:KULeuven/Model/CellDeath#References [1<html>]</html>]</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| k<sub>max</sub></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| k<sub>max</sub></div></td></tr>
</table>
Zeunas