http://2012.igem.org/wiki/index.php?title=Team:UCSF/Modeling&feed=atom&action=historyTeam:UCSF/Modeling - Revision history2024-03-28T10:37:05ZRevision history for this page on the wikiMediaWiki 1.16.0http://2012.igem.org/wiki/index.php?title=Team:UCSF/Modeling&diff=266036&oldid=prevVzepeda at 02:58, 4 October 20122012-10-04T02:58:54Z<p></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><regulartext>Our goal <del class="diffchange diffchange-inline">is </del>to <del class="diffchange diffchange-inline">get </del>a steady ratio <del class="diffchange diffchange-inline">of </del>the <del class="diffchange diffchange-inline">two strains’ populations, which is neither too large nor too small</del>. <del class="diffchange diffchange-inline">First, </del>we <del class="diffchange diffchange-inline">did mathematical analysis based on </del>the <del class="diffchange diffchange-inline">ODEs above; then we performed a simulation of this system. What’s more, we also searched suitable </del>parameters <del class="diffchange diffchange-inline">which </del>could <del class="diffchange diffchange-inline">make </del>the <del class="diffchange diffchange-inline">system go to a </del>steady ratio <del class="diffchange diffchange-inline">of </del>the <del class="diffchange diffchange-inline">two strains to test the robustness of this system. Finally, we did </del>a <del class="diffchange diffchange-inline">sensitivity analysis which could tell us which parameter is sensitive if we want to get a steady ratio</del>.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><regulartext> Our goal <ins class="diffchange diffchange-inline">was </ins>to <ins class="diffchange diffchange-inline">understand what parameters allowed for </ins>a steady <ins class="diffchange diffchange-inline">state population </ins>ratio <ins class="diffchange diffchange-inline">and also understand how sensitive </ins>the <ins class="diffchange diffchange-inline">steady state ratio was for each parameter</ins>. <ins class="diffchange diffchange-inline"> In particular </ins>we <ins class="diffchange diffchange-inline">wanted to show that </ins>the parameters <ins class="diffchange diffchange-inline">controlled by the inducer molecules (the alpha parameters) </ins>could <ins class="diffchange diffchange-inline">significantly change </ins>the steady <ins class="diffchange diffchange-inline">state </ins>ratio <ins class="diffchange diffchange-inline">given that </ins>the <ins class="diffchange diffchange-inline">other parameters were within </ins>a <ins class="diffchange diffchange-inline">realistic range</ins>. </div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Reference <br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Reference <br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[1] Alissa Kerner, Jihyang Park, Audra Williams, Xiaoxia Nina Lin “A Programmable Escherichia coli Consortium via Tunable Symbiosis”,Plos One, March 2012 | Volume 7 | Issue 3 | e34032.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[1] Alissa Kerner, Jihyang Park, Audra Williams, Xiaoxia Nina Lin “A Programmable Escherichia coli Consortium via Tunable Symbiosis”,Plos One, March 2012 | Volume 7 | Issue 3 | e34032.</div></td></tr>
</table>Vzepedahttp://2012.igem.org/wiki/index.php?title=Team:UCSF/Modeling&diff=252375&oldid=prevVzepeda at 00:05, 3 October 20122012-10-03T00:05:01Z<p></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><regulartext>Our goal is to get a steady ratio of the two strains’ populations, which is neither too large nor too small. <del class="diffchange diffchange-inline">Firstly</del>, we did mathematical analysis based on the ODEs above; then we <del class="diffchange diffchange-inline">did </del>simulation of this system. What’s more, we also searched suitable parameters which could make the system go to a steady ratio of the two strains to test the robustness of this system. <del class="diffchange diffchange-inline">At last</del>, we did a sensitivity analysis which could tell us which parameter is sensitive if we want to get a steady ratio.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><regulartext>Our goal is to get a steady ratio of the two strains’ populations, which is neither too large nor too small. <ins class="diffchange diffchange-inline">First</ins>, we did mathematical analysis based on the ODEs above; then we <ins class="diffchange diffchange-inline">performed a </ins>simulation of this system. What’s more, we also searched suitable parameters which could make the system go to a steady ratio of the two strains to test the robustness of this system. <ins class="diffchange diffchange-inline">Finally</ins>, we did a sensitivity analysis which could tell us which parameter is sensitive if we want to get a steady ratio.</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Reference <br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Reference <br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[1] Alissa Kerner, Jihyang Park, Audra Williams, Xiaoxia Nina Lin “A Programmable Escherichia coli Consortium via Tunable Symbiosis”,Plos One, March 2012 | Volume 7 | Issue 3 | e34032.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[1] Alissa Kerner, Jihyang Park, Audra Williams, Xiaoxia Nina Lin “A Programmable Escherichia coli Consortium via Tunable Symbiosis”,Plos One, March 2012 | Volume 7 | Issue 3 | e34032.</div></td></tr>
</table>Vzepedahttp://2012.igem.org/wiki/index.php?title=Team:UCSF/Modeling&diff=252361&oldid=prevVzepeda at 00:02, 3 October 20122012-10-03T00:02:44Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><regulartext>Our goal is to get a steady ratio of the two strains’ populations, which is neither too large nor too small. Firstly, we did mathematical analysis based on the ODEs above; then we did simulation of this system. What’s more, we also searched suitable parameters which could make the system go to a steady ratio of the two strains to test the robustness of this system. At last, we did a sensitivity analysis which could tell us which parameter is sensitive if we want to get a steady ratio.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><regulartext>Our goal is to get a steady ratio of the two strains’ populations, which is neither too large nor too small. Firstly, we did mathematical analysis based on the ODEs above; then we did simulation of this system. What’s more, we also searched suitable parameters which could make the system go to a steady ratio of the two strains to test the robustness of this system. At last, we did a sensitivity analysis which could tell us which parameter is sensitive if we want to get a steady ratio.</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;"><regulartext></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;">Reference <br></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;">[1] Alissa Kerner, Jihyang Park, Audra Williams, Xiaoxia Nina Lin “A Programmable Escherichia coli Consortium via Tunable Symbiosis”,Plos One, March 2012 | Volume 7 | Issue 3 | e34032.</ins></div></td></tr>
</table>Vzepedahttp://2012.igem.org/wiki/index.php?title=Team:UCSF/Modeling&diff=252355&oldid=prevVzepeda at 00:00, 3 October 20122012-10-03T00:00:41Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><regulartext>**A summary of our modeling work is shown on this page and a detailed analysis can be downloaded <a href="https://dl.dropbox.com/u/24404809/iGEM%202012/igem%202012%20website%20photos/Modeling/Modeling%20of%20the%20original%20auxotroph%20system.pdf"> HERE</a> <br> </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><regulartext>**A summary of our modeling work is shown on this page and a detailed analysis can be downloaded <a href="https://dl.dropbox.com/u/24404809/iGEM%202012/igem%202012%20website%20photos/Modeling/Modeling%20of%20the%20original%20auxotroph%20system.pdf"> HERE</a> <br> </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 class="diffchange diffchange-inline"><regulartext>Our goal is to get a steady ratio of the two strains’ populations, which is neither too large nor too small. Firstly, we did mathematical analysis based on the ODEs above; then we did simulation of this system. What’s more, we also searched suitable parameters which could make the system go to a steady ratio of the two strains to test the robustness of this system. At last, we did a sensitivity analysis which could tell us which parameter is sensitive if we want to get a steady ratio.</ins></div></td></tr>
</table>Vzepedahttp://2012.igem.org/wiki/index.php?title=Team:UCSF/Modeling&diff=247517&oldid=prevVzepeda at 23:55, 1 October 20122012-10-01T23:55:56Z<p></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><h3red>Modeling of the Auxotroph System</h3red> <br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><h3red>Modeling of the Auxotroph System</h3red<ins class="diffchange diffchange-inline">> <br><p></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 class="diffchange diffchange-inline"><regulartext>**A summary of our modeling work is shown on this page and a detailed analysis can be downloaded <a href="https://dl.dropbox.com/u/24404809/iGEM%202012/igem%202012%20website%20photos/Modeling/Modeling%20of%20the%20original%20auxotroph%20system.pdf"> HERE</a</ins>> <br> </div></td></tr>
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</table>Vzepedahttp://2012.igem.org/wiki/index.php?title=Team:UCSF/Modeling&diff=247509&oldid=prevVzepeda at 23:51, 1 October 20122012-10-01T23:51:35Z<p></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><div id="instructions" style="text-align: center; font-weight: normal; font-size: small; color: #f6f6f6; padding: 5px;"></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">You are provided with this team page template with which to start the iGEM season. You may choose to personalize it to fit your team but keep the same "look." Or you may choose to take your team wiki to a different level and design your own wiki. You can find some examples <a href="https://2008.igem.org/Help:Template/Examples">HERE</a>.</del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"></div></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><div id="warning" style="text-align: center; font-weight: bold; font-size: small; color: #f6f6f6; padding: 5px;"></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">You <strong>MUST</strong> have all of the pages listed in the menu below with the names specified. PLEASE keep all of your pages within your teams namespace. </del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"></div></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"></div></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"></html></del></div></td><td colspan="2"> </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: #ffa; color:black; font-size: smaller;"><div><<del class="diffchange diffchange-inline">!-- *** End of the alert box *** --></del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><<ins class="diffchange diffchange-inline">link rel</ins>="<ins class="diffchange diffchange-inline">stylesheet</ins>" <ins class="diffchange diffchange-inline">type</ins>="<ins class="diffchange diffchange-inline">text/css</ins>" <ins class="diffchange diffchange-inline">href</ins>="<ins class="diffchange diffchange-inline">http</ins>://<ins class="diffchange diffchange-inline">tinyurl</ins>.<ins class="diffchange diffchange-inline">com</ins>/<ins class="diffchange diffchange-inline">twilightsparkles</ins>"/<ins class="diffchange diffchange-inline">></ins></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> </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> </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><del class="diffchange diffchange-inline">{| style</del>="<del class="diffchange diffchange-inline">color:#1b2c8a;background-color:#0c6;</del>" <del class="diffchange diffchange-inline">cellpadding</del>="<del class="diffchange diffchange-inline">3</del>" <del class="diffchange diffchange-inline">cellspacing</del>="<del class="diffchange diffchange-inline">1" border="1" bordercolor="#fff" width="62%" align="center"</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><del class="diffchange diffchange-inline">!align="center"|[[Team:UCSF|Home]]</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><del class="diffchange diffchange-inline">!align="center"|[[Team:UCSF/Team|Team]]</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><del class="diffchange diffchange-inline">!align="center"|[https</del>://<del class="diffchange diffchange-inline">igem</del>.<del class="diffchange diffchange-inline">org</del>/<del class="diffchange diffchange-inline">Team.cgi?year=2012&team_name=UCSF Official Team Profile]</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><del class="diffchange diffchange-inline">!align=</del>"<del class="diffchange diffchange-inline">center"|[[Team:UCSF</del>/<del class="diffchange diffchange-inline">Project|Project]]</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><del class="diffchange diffchange-inline">!align="center"|[[Team:UCSF/Parts|Parts Submitted to the Registry]]</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><del class="diffchange diffchange-inline">!align="center"|[[Team:UCSF/Modeling|Modeling]]</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><del class="diffchange diffchange-inline">!align="center"|[[Team:UCSF/Notebook|Notebook]]</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><del class="diffchange diffchange-inline">!align="center"|[[Team:UCSF/Safety|Safety]]</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><del class="diffchange diffchange-inline">!align="center"|[[Team:UCSF/Attributions|Attributions]]</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><del class="diffchange diffchange-inline">|}</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> </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> </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><del class="diffchange diffchange-inline">If you choose to include a '''Modeling''' page, please write about your modeling adventures here. This is not necessary but it may be a nice list to include.</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div></div></td></tr>
</table>Vzepedahttp://2012.igem.org/wiki/index.php?title=Team:UCSF/Modeling&diff=1688&oldid=prevIGEM HQ: Prototype team page2012-03-26T17:44:36Z<p>Prototype team page</p>
<p><b>New page</b></p><div><!-- *** What falls between these lines is the Alert Box! You can remove it from your pages once you have read and understood the alert *** --><br />
<br />
<html><br />
<div id="box" style="width: 700px; margin-left: 137px; padding: 5px; border: 3px solid #000; background-color: #fe2b33;"><br />
<div id="template" style="text-align: center; font-weight: bold; font-size: large; color: #f6f6f6; padding: 5px;"><br />
This is a template page. READ THESE INSTRUCTIONS.<br />
</div><br />
<div id="instructions" style="text-align: center; font-weight: normal; font-size: small; color: #f6f6f6; padding: 5px;"><br />
You are provided with this team page template with which to start the iGEM season. You may choose to personalize it to fit your team but keep the same "look." Or you may choose to take your team wiki to a different level and design your own wiki. You can find some examples <a href="https://2008.igem.org/Help:Template/Examples">HERE</a>.<br />
</div><br />
<div id="warning" style="text-align: center; font-weight: bold; font-size: small; color: #f6f6f6; padding: 5px;"><br />
You <strong>MUST</strong> have all of the pages listed in the menu below with the names specified. PLEASE keep all of your pages within your teams namespace. <br />
</div><br />
</div><br />
</html><br />
<br />
<!-- *** End of the alert box *** --><br />
<br />
<br />
{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="62%" align="center"<br />
!align="center"|[[Team:UCSF|Home]]<br />
!align="center"|[[Team:UCSF/Team|Team]]<br />
!align="center"|[https://igem.org/Team.cgi?year=2012&team_name=UCSF Official Team Profile]<br />
!align="center"|[[Team:UCSF/Project|Project]]<br />
!align="center"|[[Team:UCSF/Parts|Parts Submitted to the Registry]]<br />
!align="center"|[[Team:UCSF/Modeling|Modeling]]<br />
!align="center"|[[Team:UCSF/Notebook|Notebook]]<br />
!align="center"|[[Team:UCSF/Safety|Safety]]<br />
!align="center"|[[Team:UCSF/Attributions|Attributions]]<br />
|}<br />
<br />
<br />
If you choose to include a '''Modeling''' page, please write about your modeling adventures here. This is not necessary but it may be a nice list to include.</div>IGEM HQ