http://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&feed=atom&action=historyTeam:USTC CHINA/Modeling/ReporterSystem - Revision history2024-03-28T18:52:38ZRevision history for this page on the wikiMediaWiki 1.16.5http://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=203033&oldid=prevBearimf: Blanked the page2013-09-27T10:05:08Z<p>Blanked the page</p>
<a href="http://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=203033&oldid=203017">Show changes</a>Bearimfhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=203017&oldid=prevBearimf at 10:04, 27 September 20132013-09-27T10:04:11Z<p></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 10:04, 27 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 5:</td>
<td colspan="2" class="diff-lineno">Line 5:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><style type="text/css"> </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><style type="text/css"> </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>.gel{</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>.gel{</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;"> margin:0px;</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>}</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>}</div></td></tr>
</table>Bearimfhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=202863&oldid=prevBearimf at 09:56, 27 September 20132013-09-27T09:56:02Z<p></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 09:56, 27 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 3:</td>
<td colspan="2" class="diff-lineno">Line 3:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><head></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><head></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><link rel="stylesheet" type="text/css" href="https://2013.igem.org/Team:USTC_CHINA/main.css?action=raw&ctype=text/css" /></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><link rel="stylesheet" type="text/css" href="https://2013.igem.org/Team:USTC_CHINA/main.css?action=raw&ctype=text/css" /></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;"><style type="text/css"> </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;">.gel{</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;">}</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;"></style></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></head></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></head></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><body background="https://static.igem.org/mediawiki/2013/6/62/2013ustc-china_Light_grey_bg.png"></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><body background="https://static.igem.org/mediawiki/2013/6/62/2013ustc-china_Light_grey_bg.png"></div></td></tr>
</table>Bearimfhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=192044&oldid=prevKndtmsl at 22:04, 26 September 20132013-09-26T22:04:27Z<p></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 22:04, 26 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 504:</td>
<td colspan="2" class="diff-lineno">Line 504:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The curve of C<sub>f</sub> and R<sub>f</sub> alone:</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The curve of C<sub>f</sub> and R<sub>f</sub> alone:</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/e/eb/Suicide9.png"></br></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/e/eb/Suicide9.png"></br></br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>In spite of minimal abnormal phenomenon (<del class="diffchange diffchange-inline">Cf </del>was negative in later stage), this graph roughly testified that in wild bacterial the concentration of float SdpC will drop to nearly zero quickly.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>In spite of minimal abnormal phenomenon (<ins class="diffchange diffchange-inline">C<sub>f</sub> </ins>was negative in later stage), this graph roughly testified that in wild bacterial the concentration of float SdpC will drop to nearly zero quickly.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In sum, the ODE model of singular cells indicate following results:</br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In sum, the ODE model of singular cells indicate following results:</br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><ol></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><ol></div></td></tr>
</table>Kndtmslhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=191964&oldid=prevKndtmsl at 21:58, 26 September 20132013-09-26T21:58:09Z<p></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 21:58, 26 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 148:</td>
<td colspan="2" class="diff-lineno">Line 148:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/e/e8/For1%281%29.png"></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/e/e8/For1%281%29.png"></br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/2/23/For2%281%29.png"></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/2/23/For2%281%29.png"></br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<del class="diffchange diffchange-inline">9</del>/<del class="diffchange diffchange-inline">9a</del>/For3.png"></br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<ins class="diffchange diffchange-inline">4</ins>/<ins class="diffchange diffchange-inline">48</ins>/For3<ins class="diffchange diffchange-inline">%281%29</ins>.png"></br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/7/71/For4.png"></br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/7/71/For4<ins class="diffchange diffchange-inline">%281%29</ins>.png"></br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<del class="diffchange diffchange-inline">7</del>/<del class="diffchange diffchange-inline">7e</del>/For5.png"></br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<ins class="diffchange diffchange-inline">3</ins>/<ins class="diffchange diffchange-inline">31</ins>/For5<ins class="diffchange diffchange-inline">%281%29</ins>.png"></br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<del class="diffchange diffchange-inline">7</del>/<del class="diffchange diffchange-inline">70</del>/For6.png"></br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<ins class="diffchange diffchange-inline">c</ins>/<ins class="diffchange diffchange-inline">cb</ins>/For6<ins class="diffchange diffchange-inline">%281%29</ins>.png"></br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The following table explain the constants in the above ODE groups:</br></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The following table explain the constants in the above ODE groups:</br></br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><table border="1"></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><table border="1"></div></td></tr>
</table>Kndtmslhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=191852&oldid=prevKndtmsl at 21:48, 26 September 20132013-09-26T21:48:29Z<p></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 21:48, 26 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 146:</td>
<td colspan="2" class="diff-lineno">Line 146:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Taken as a statement about kinetics, the law states that the rate of an elementary reaction (a reaction that proceeds through only one transition state, which is one mechanistic step) is proportional to the product of the concentrations of the participating molecules. In modern chemistry this is derived using statistical mechanics. Despite the complicated chemical reactions involved in the process of transcription and translation, it is common and logically sound to view the expression of one particular gene as an elementary reaction and assume the repression effects of the protein itself encodes and the repressor are both linear.</br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Taken as a statement about kinetics, the law states that the rate of an elementary reaction (a reaction that proceeds through only one transition state, which is one mechanistic step) is proportional to the product of the concentrations of the participating molecules. In modern chemistry this is derived using statistical mechanics. Despite the complicated chemical reactions involved in the process of transcription and translation, it is common and logically sound to view the expression of one particular gene as an elementary reaction and assume the repression effects of the protein itself encodes and the repressor are both linear.</br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>According to the law of mass action, we got six independent differential equation of the variables:</br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>According to the law of mass action, we got six independent differential equation of the variables:</br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<del class="diffchange diffchange-inline">b</del>/<del class="diffchange diffchange-inline">bb</del>/For1.png"></br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<ins class="diffchange diffchange-inline">e</ins>/<ins class="diffchange diffchange-inline">e8</ins>/For1<ins class="diffchange diffchange-inline">%281%29</ins>.png"></br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<del class="diffchange diffchange-inline">a</del>/<del class="diffchange diffchange-inline">aa</del>/For2.png"></br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/<ins class="diffchange diffchange-inline">2</ins>/<ins class="diffchange diffchange-inline">23</ins>/For2<ins class="diffchange diffchange-inline">%281%29</ins>.png"></br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/9/9a/For3.png"></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/9/9a/For3.png"></br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/7/71/For4.png"></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/7/71/For4.png"></br></div></td></tr>
</table>Kndtmslhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=191742&oldid=prevKndtmsl at 21:36, 26 September 20132013-09-26T21:36:39Z<p></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 21:36, 26 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 213:</td>
<td colspan="2" class="diff-lineno">Line 213:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></div></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></div></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><div></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><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">h1</del>>Discussions on the constants</<del class="diffchange diffchange-inline">h1</del>></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><<ins class="diffchange diffchange-inline">h2</ins>>Discussions on the constants</<ins class="diffchange diffchange-inline">h2</ins>></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>All the constants given above is steady and theoretically measurable when all the conditions are constant. For example, we could measure k<sub>0</sub> by constructing a new engineered bacteria, which contains the gene encoding SdpC and marker gene alone and observing the influence of the concentration of SdpC on its expression. Yet any modification on genome is notoriously time-consuming, which inhibited us from measuring them in person. We also looked up oceans of papers to confer their approximate ranges, but almost all papers are too fragmental to afford any valid information. Therefore, we decided to assume all these constant according to our limited information and make a qualitative analysis instead of quantifiable analysis. All units and dimensions were temporarily ignored. In other words, our model aims at justifying the validity of this suicide mechanism rather than predicting the exact time or any other parameters of the system.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>All the constants given above is steady and theoretically measurable when all the conditions are constant. For example, we could measure k<sub>0</sub> by constructing a new engineered bacteria, which contains the gene encoding SdpC and marker gene alone and observing the influence of the concentration of SdpC on its expression. Yet any modification on genome is notoriously time-consuming, which inhibited us from measuring them in person. We also looked up oceans of papers to confer their approximate ranges, but almost all papers are too fragmental to afford any valid information. Therefore, we decided to assume all these constant according to our limited information and make a qualitative analysis instead of quantifiable analysis. All units and dimensions were temporarily ignored. In other words, our model aims at justifying the validity of this suicide mechanism rather than predicting the exact time or any other parameters of the system.</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" class="diff-lineno">Line 224:</td>
<td colspan="2" class="diff-lineno">Line 224:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></ol></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></ol></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></br></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></br></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">h1</del>>Stimulation and discussion</<del class="diffchange diffchange-inline">h1</del>></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><<ins class="diffchange diffchange-inline">h2</ins>>Stimulation and discussion</<ins class="diffchange diffchange-inline">h2</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>Simple and rough as the above model is, it does theoretically sound. To test the validity of this model, we first tried to get analytic solution of the ODE set. If this analytic solution exists, we could further investigate the interaction among those variables, and draw some phase planes to get accurate and mathematically perfect description of this model. Unfortunately but expectedly, the existence of analytic solution was negated by MATLAB, and we had to assume groups of values for these constants in advance and analyze the arithmetic solutions instead. These arithmetic solutions not only justified this mechanism is effective enough to commit cell suicide but also indicated some unexpected, or even weird results that beyond our wildest imagination. There are two possibility account for the unexpected results: our model is too rough to include some assignable factor; or there are some implicit but objective limitation inside model, which may be substantiate by later experiments or papers.</br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Simple and rough as the above model is, it does theoretically sound. To test the validity of this model, we first tried to get analytic solution of the ODE set. If this analytic solution exists, we could further investigate the interaction among those variables, and draw some phase planes to get accurate and mathematically perfect description of this model. Unfortunately but expectedly, the existence of analytic solution was negated by MATLAB, and we had to assume groups of values for these constants in advance and analyze the arithmetic solutions instead. These arithmetic solutions not only justified this mechanism is effective enough to commit cell suicide but also indicated some unexpected, or even weird results that beyond our wildest imagination. There are two possibility account for the unexpected results: our model is too rough to include some assignable factor; or there are some implicit but objective limitation inside model, which may be substantiate by later experiments or papers.</br></div></td></tr>
</table>Kndtmslhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=191710&oldid=prevKndtmsl at 21:34, 26 September 20132013-09-26T21:34:26Z<p></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 21:34, 26 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 155:</td>
<td colspan="2" class="diff-lineno">Line 155:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><table border="1"></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><table border="1"></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <tr></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> <td ><del class="diffchange diffchange-inline">Name</del></td></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> <td ><ins class="diffchange diffchange-inline">Mark</ins></td></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <td >Meaning</td></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <td >Meaning</td></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> </tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> </tr></div></td></tr>
<tr><td colspan="2" class="diff-lineno">Line 164:</td>
<td colspan="2" class="diff-lineno">Line 164:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <tr></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <td >k<sub>0</sub></td></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <td >k<sub>0</sub></td></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> <td >Constant describes the normal expression rate of <del class="diffchange diffchange-inline">SdpI</del></td></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> <td >Constant describes the normal expression rate of <ins class="diffchange diffchange-inline">SdpC</ins></td></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> </tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> </tr></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <tr></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <td >k<sub>1</sub> </td></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <td >k<sub>1</sub> </td></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> <td >Constant describes the self-repression effects of <del class="diffchange diffchange-inline">SdpI</del></td></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> <td >Constant describes the self-repression effects of <ins class="diffchange diffchange-inline">SdpC</ins></td></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> </tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> </tr></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <tr></div></td></tr>
<tr><td colspan="2" class="diff-lineno">Line 458:</td>
<td colspan="2" class="diff-lineno">Line 458:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></table></br></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></table></br></br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/1/19/Suicide7.png"></br></br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><img src="https://static.igem.org/mediawiki/2013/1/19/Suicide7.png"></br></br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Wired but not surprising, there were intersects among the latter three curve, and C<sub>f</sub> decreases continually when it is negative.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Wired but not surprising, there were intersects among the latter three curve, and C<sub>f</sub> decreases continually when it is negative<ins class="diffchange diffchange-inline">. We continued to try groups of these parameters, and this is the best one where we increased the primary concentration of SdpC and the normal expression rate of SdpI</ins>.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><table border="1"></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><table border="1"></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><tr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><tr></div></td></tr>
<tr><td colspan="2" class="diff-lineno">Line 493:</td>
<td colspan="2" class="diff-lineno">Line 493:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><td>20</td></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><td>20</td></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><td>500</td></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><td>500</td></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><td><del class="diffchange diffchange-inline">5</del></td></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><td><ins class="diffchange diffchange-inline">8</ins></td></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><td>5</td></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><td>5</td></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><td>1</td></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><td>1</td></div></td></tr>
</table>Kndtmslhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=189748&oldid=prevKndtmsl at 18:58, 26 September 20132013-09-26T18:58:59Z<p></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 18:58, 26 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 507:</td>
<td colspan="2" class="diff-lineno">Line 507:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In sum, the ODE model of singular cells indicate following results:</br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In sum, the ODE model of singular cells indicate following results:</br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><ol></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><ol></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><li>The character of free SdpC is most affected by k<sub>0</sub>, if the copy number of SdpC is large enough, it is theoretically reasonable to commit suicide;<li></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><li>The character of free SdpC is most affected by k<sub>0</sub>, if the copy number of SdpC is large enough, it is theoretically reasonable to commit suicide;<<ins class="diffchange diffchange-inline">/</ins>li></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>The influence of the value of Imax and k<sub>2</sub> is much limited;</li></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>The influence of the value of Imax and k<sub>2</sub> is much limited;</li></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>The amount of free SdpI is always near zero;</li></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>The amount of free SdpI is always near zero;</li></div></td></tr>
</table>Kndtmslhttp://2013.igem.org/wiki/index.php?title=Team:USTC_CHINA/Modeling/ReporterSystem&diff=189742&oldid=prevKndtmsl at 18:58, 26 September 20132013-09-26T18:58:23Z<p></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 18:58, 26 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 513:</td>
<td colspan="2" class="diff-lineno">Line 513:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>To ensure the success of suicide, it is required k<sub>0</sub>>>k<sub>4</sub>>>k<sub>7</sub>;</li></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><li>To ensure the success of suicide, it is required k<sub>0</sub>>>k<sub>4</sub>>>k<sub>7</sub>;</li></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The last conclusion was our biggest windfall, and we have verified the validity of this suicide mechanism in math. On the one hand, if further experiments proven #4 engineered bacteria will kill both siblings and themselves, it is highly like that the expression rate SdpI is much larger than SdpR even if they share the same promoter; on the other hand, if #4 engineered bacteria are not able to commit suicide, we can try to boost the expression of SdpI to adjust the bacteria.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The last conclusion was our biggest windfall, and we have verified the validity of this suicide mechanism in math. On the one hand, if further experiments proven #4 engineered bacteria will kill both siblings and themselves, it is highly like that the expression rate SdpI is much larger than SdpR even if they share the same promoter; on the other hand, if #4 engineered bacteria are not able to commit suicide, we can try to boost the expression of SdpI to adjust the bacteria.</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;"></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;"><h1>Discussion on colonies</h1></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;">In reality, the engineered bacteria aims at killing its siblings instead of itself, and at first almost all toxin SdpC will be secreted outside the bacteria. Assume the diffusion of toxin among cells comply with diffusion law, that is, the diffusion rate is proportionate with the gradient of concentration. Further assume the death concentration of SdpC is same to all bacteria expect those who contain this locus, the average life expectancy is bacteria will hinge on the rate and distribution of engineered bacteria, and the distribution of life expectancy of bacteria is similar to that of average free path of gas molecules.</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;">As long the coefficient of diffusion is large enough, any engineered bacterias, no matter how few, is adequate to devastate the whole colony. Alike to the average free path of thin gas, the average suicide time of the whole reporter system is inversely proportional with the square root of the rate of engineer bacteria containing this locus.</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;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
</table>Kndtmsl