http://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&feed=atom&action=historyTeam:XMU-China/modeling - Revision history2024-03-28T17:37:21ZRevision history for this page on the wikiMediaWiki 1.16.0http://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=237701&oldid=prevFBS at 03:46, 27 September 20122012-09-27T03:46:54Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Those functions about describing the rate equations of biochemical reactions in the circuit P<sub>cI</sub>GLT are:<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Those functions about describing the rate equations of biochemical reactions in the circuit P<sub>cI</sub>GLT are:<br></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Those functions about describing the rate equations of biochemical reactions in the circuit P<sub>cI</sub>GLT are:<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Those functions about describing the rate equations of biochemical reactions in the circuit P<sub>cI</sub>GLT are:<br></div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> <tr><td><b>Figure <del class="diffchange diffchange-inline">2</del>:</b> Fitting line and data of fluorescence intensity (Value Arc=0.1).</td></tr></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> <tr></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"> </ins><td><b>Figure <ins class="diffchange diffchange-inline">3</ins>:</b> Fitting line and data of fluorescence intensity (Value Arc=0.1).</td></tr></div></td></tr>
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</table>FBShttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=212239&oldid=prevYoubin at 19:32, 26 September 20122012-09-26T19:32:44Z<p></p>
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</table>Youbinhttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=211114&oldid=prevYoubin: moved Template:Team:XMU-China/modeling to Team:XMU-China/modeling2012-09-26T19:08:45Z<p>moved <a href="/Template:Team:XMU-China/modeling" class="mw-redirect" title="Template:Team:XMU-China/modeling">Template:Team:XMU-China/modeling</a> to <a href="/Team:XMU-China/modeling" title="Team:XMU-China/modeling">Team:XMU-China/modeling</a></p>
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</tr></table>Youbinhttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=208458&oldid=prevYoubin at 18:13, 26 September 20122012-09-26T18:13:35Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p class="tit">Modeling</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p class="tit">Modeling</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc01"></a>1. Introduction</strong><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc01"></a>1. Introduction</strong><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Ordinary differential equation(s) (ODE) is one of the most popular methods in modeling. Frank R. Giordano and other scientists have introduced it exhaustively. <sup><a href="#_ENREF_1" title="Ron Weiss, 2003 #2">[1]</a></sup> In many computational biological researching, researchers often use it to simulate the dynamics part of biological process. The concentrations of RNA, proteins, and other molecules are represented by time-dependent variables. <sup><a href="#_ENREF_2" title="Ron Weiss, 2003 #2">[2]</a></sup> We used the same method to construct our model.</p><hr></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Ordinary differential equation(s) (ODE) is one of the most popular methods in modeling. Frank R. Giordano and other scientists have introduced it exhaustively. <sup><a href="#_ENREF_1" title="Ron Weiss, 2003 #2">[1]</a></sup> In many computational biological researching, researchers often use it to simulate the dynamics part of biological process. The concentrations of RNA, proteins, and other molecules are represented by time-dependent variables. <sup><a href="#_ENREF_2" title="Ron Weiss, 2003 #2">[2]</a></sup> We used the same method to construct our model.</p><hr<ins class="diffchange diffchange-inline">><br</ins>></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc02" id="Toc02"></a>2. Modeling</strong><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc02" id="Toc02"></a>2. Modeling</strong><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>First of all, there are 4 variables and 4 parameters in this experience. Their names and meanings are listed below.<table width="740" border="0" align="center" id="commun"></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>First of all, there are 4 variables and 4 parameters in this experience. Their names and meanings are listed below.<table width="740" border="0" align="center" id="commun"></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc03" id="Toc03"></a>3. Result</strong><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc03" id="Toc03"></a>3. Result</strong><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>According to Figure (1-3), we can draw a conclusion that the model we constructed can simulate the process of dynamic change in fluorescence intensity. We can figure out how those parameters work in this model if we have more experience data.</p><hr></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>According to Figure (1-3), we can draw a conclusion that the model we constructed can simulate the process of dynamic change in fluorescence intensity. We can figure out how those parameters work in this model if we have more experience data.</p><hr<ins class="diffchange diffchange-inline">><br</ins>></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc04" id="Toc04"></a>4. Reference</strong><br></p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc04" id="Toc04"></a>4. Reference</strong><br></p></div></td></tr>
</table>Youbinhttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=206461&oldid=prevIshuidi at 17:23, 26 September 20122012-09-26T17:23:37Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc01"></a>1. Introduction</strong><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc01"></a>1. Introduction</strong><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Ordinary differential equation(s) (ODE) is one of the most popular methods in modeling. Frank R. Giordano and other scientists have introduced it exhaustively. <sup><a href="#_ENREF_1" title="Ron Weiss, 2003 #2">[1]</a></sup> In many computational biological researching, researchers often use it to simulate the dynamics part of biological process. The concentrations of RNA, proteins, and other molecules are represented by time-dependent variables. <sup><a href="#_ENREF_2" title="Ron Weiss, 2003 #2">[2]</a></sup> We used the same method to construct our model.</p><hr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Ordinary differential equation(s) (ODE) is one of the most popular methods in modeling. Frank R. Giordano and other scientists have introduced it exhaustively. <sup><a href="#_ENREF_1" title="Ron Weiss, 2003 #2">[1]</a></sup> In many computational biological researching, researchers often use it to simulate the dynamics part of biological process. The concentrations of RNA, proteins, and other molecules are represented by time-dependent variables. <sup><a href="#_ENREF_2" title="Ron Weiss, 2003 #2">[2]</a></sup> We used the same method to construct our model.</p><hr></div></td></tr>
</table>Ishuidihttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=206137&oldid=prevIshuidi at 17:16, 26 September 20122012-09-26T17:16:47Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The initial condition is<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The initial condition is<br></div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Equation (3) represents the course of growth of E.coli. Equation (4) represents the course of producing and decomposing GFP. Equation (5) represents the arabinose utilized for inducing. OD<sub>0</sub>, flu<sub>0</sub> and Arc0 is value of OD, flu and Arc when t=0.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Equation (3) represents the course of growth of <ins class="diffchange diffchange-inline"><i></ins>E.coli<ins class="diffchange diffchange-inline">.</i></ins>. Equation (4) represents the course of producing and decomposing GFP. Equation (5) represents the arabinose utilized for inducing. OD<sub>0</sub>, flu<sub>0</sub> and Arc0 is value of OD, flu and Arc when t=0.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>After that, we changed the parameters and then found out the value fitting the data of fluorescence intensity most.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>After that, we changed the parameters and then found out the value fitting the data of fluorescence intensity most.</div></td></tr>
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</table>Ishuidihttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=206045&oldid=prevIshuidi at 17:14, 26 September 20122012-09-26T17:14:19Z<p></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p class="tit"><del class="diffchange diffchange-inline">Model</del></p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p class="tit"><ins class="diffchange diffchange-inline">Modelling</ins></p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc01"></a>Introduction</strong><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc01"></a><ins class="diffchange diffchange-inline">1. </ins>Introduction</strong><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Ordinary differential equation(s) (ODE) is one of the most popular methods in modeling. Frank R. Giordano and other scientists have introduced it exhaustively. <sup><a href="#_ENREF_1" title="Ron Weiss, 2003 #2">[1]</a></sup> In many computational biological researching, researchers often use it to simulate the dynamics part of biological process. The concentrations of RNA, proteins, and other molecules are represented by time-dependent variables. <sup><a href="#_ENREF_2" title="Ron Weiss, 2003 #2">[2]</a></sup> We used the same method to construct our model.</p><hr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Ordinary differential equation(s) (ODE) is one of the most popular methods in modeling. Frank R. Giordano and other scientists have introduced it exhaustively. <sup><a href="#_ENREF_1" title="Ron Weiss, 2003 #2">[1]</a></sup> In many computational biological researching, researchers often use it to simulate the dynamics part of biological process. The concentrations of RNA, proteins, and other molecules are represented by time-dependent variables. <sup><a href="#_ENREF_2" title="Ron Weiss, 2003 #2">[2]</a></sup> We used the same method to construct our model.</p><hr></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc02" id="Toc02"></a>Modeling</strong><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc02" id="Toc02"></a><ins class="diffchange diffchange-inline">2. </ins>Modeling</strong><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>First of all, there are 4 variables and 4 parameters in this experience. Their names and meanings are listed below.<table width="740" border="0" align="center" id="commun"></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>First of all, there are 4 variables and 4 parameters in this experience. Their names and meanings are listed below.<table width="740" border="0" align="center" id="commun"></div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc03" id="Toc03"></a>Result</strong><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc03" id="Toc03"></a><ins class="diffchange diffchange-inline">3. </ins>Result</strong><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>According to Figure (1-3), we can draw a conclusion that the model we constructed can simulate the process of dynamic change in fluorescence intensity. We can figure out how those parameters work in this model if we have more experience data.</p><hr></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>According to Figure (1-3), we can draw a conclusion that the model we constructed can simulate the process of dynamic change in fluorescence intensity. We can figure out how those parameters work in this model if we have more experience data.</p><hr></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: #ffa; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc04" id="Toc04"></a>Reference</strong><br></p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc04" id="Toc04"></a><ins class="diffchange diffchange-inline">4. </ins>Reference</strong><br></p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="left"><a name="_ENREF_1" id="_ENREF_1">[1] Frank R. Giordano, Maurice D. Weir, William P. Fox, <em>A First Course in Mathematical Modeling</em>, Third Edition, Thomson Learning, <strong>2003</strong>, 297-329</a><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="left"><a name="_ENREF_1" id="_ENREF_1">[1] Frank R. Giordano, Maurice D. Weir, William P. Fox, <em>A First Course in Mathematical Modeling</em>, Third Edition, Thomson Learning, <strong>2003</strong>, 297-329</a><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <a name="_ENREF_2" id="_ENREF_2">[2] RON WEISS, SUBHAYU BASU, SARA HOOSHANGI, ABIGAIL KALMBACH, DAVID KARIG, RISHABH MEHREJA and ILKA NETRAVALI Genetic circuit building blocks for cellular computation, communications, and signal processing, Natural Computing, <strong>2003</strong>, <em>2</em>: 47–84. </a><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div> <a name="_ENREF_2" id="_ENREF_2">[2] RON WEISS, SUBHAYU BASU, SARA HOOSHANGI, ABIGAIL KALMBACH, DAVID KARIG, RISHABH MEHREJA and ILKA NETRAVALI Genetic circuit building blocks for cellular computation, communications, and signal processing, Natural Computing, <strong>2003</strong>, <em>2</em>: 47–84. </a><br></div></td></tr>
</table>Ishuidihttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=199946&oldid=prevYoubin at 14:41, 26 September 20122012-09-26T14:41:34Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Those functions about describing the rate equations of biochemical reactions in the circuit P<sub>cI</sub>GLT are:<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Those functions about describing the rate equations of biochemical reactions in the circuit P<sub>cI</sub>GLT are:<br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img width="<del class="diffchange diffchange-inline">550</del>" src="https://static.igem.org/mediawiki/2012/2/2f/XMUmodel5.jpg"><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img width="<ins class="diffchange diffchange-inline">450</ins>" src="https://static.igem.org/mediawiki/2012/2/2f/XMUmodel5.jpg"><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The initial condition is<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The initial condition is<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/2012/7/74/XMUmodel6.jpg" width="<del class="diffchange diffchange-inline">180</del>"><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/2012/7/74/XMUmodel6.jpg" width="<ins class="diffchange diffchange-inline">130</ins>"><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Equation (1) represents the course of growth of <i>E.coli.</i><sup><a href="#_ENREF_3" title="Ron Weiss, 2003 #2">[3]</a></sup> Equation (2) represents the course of producing and decomposing GFP. OD<sub>0</sub> and flu<sub>0</sub> is value of OD and flu when t=0.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Equation (1) represents the course of growth of <i>E.coli.</i><sup><a href="#_ENREF_3" title="Ron Weiss, 2003 #2">[3]</a></sup> Equation (2) represents the course of producing and decomposing GFP. OD<sub>0</sub> and flu<sub>0</sub> is value of OD and flu when t=0.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Then, we changed the parameters and figured out the best value for fitting the data of fluorescence intensity.<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Then, we changed the parameters and figured out the best value for fitting the data of fluorescence intensity.<br></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Those functions about describing the rate equations of biochemical reactions in the circuit P<sub>cI</sub>GLT are:<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Those functions about describing the rate equations of biochemical reactions in the circuit P<sub>cI</sub>GLT are:<br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img width="<del class="diffchange diffchange-inline">550</del>" src="https://static.igem.org/mediawiki/2012/b/b7/XMUmodel11.jpg"><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img width="<ins class="diffchange diffchange-inline">450</ins>" src="https://static.igem.org/mediawiki/2012/b/b7/XMUmodel11.jpg"><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The initial condition is<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The initial condition is<br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><img width="<del class="diffchange diffchange-inline">180</del>" src="https://static.igem.org/mediawiki/2012/6/68/XMUmodel12.jpg"><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><img width="<ins class="diffchange diffchange-inline">130</ins>" src="https://static.igem.org/mediawiki/2012/6/68/XMUmodel12.jpg"><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Equation (3) represents the course of growth of E.coli. Equation (4) represents the course of producing and decomposing GFP. Equation (5) represents the arabinose utilized for inducing. OD<sub>0</sub>, flu<sub>0</sub> and Arc0 is value of OD, flu and Arc when t=0.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Equation (3) represents the course of growth of E.coli. Equation (4) represents the course of producing and decomposing GFP. Equation (5) represents the arabinose utilized for inducing. OD<sub>0</sub>, flu<sub>0</sub> and Arc0 is value of OD, flu and Arc when t=0.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>After that, we changed the parameters and then found out the value fitting the data of fluorescence intensity most.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>After that, we changed the parameters and then found out the value fitting the data of fluorescence intensity most.</div></td></tr>
</table>Youbinhttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=184398&oldid=prevYoubin at 01:22, 26 September 20122012-09-26T01:22:05Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc04" id="Toc04"></a>Reference</strong><br></p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc04" id="Toc04"></a>Reference</strong><br></p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p align="left"><a name="_ENREF_1" id="_ENREF_1">[1] Frank R. Giordano, Maurice D. Weir, William P. Fox, A First Course in Mathematical Modeling, Third Edition, Thomson Learning, 2003, 297-329</a><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p align="left"><a name="_ENREF_1" id="_ENREF_1">[1] Frank R. Giordano, Maurice D. Weir, William P. Fox, <ins class="diffchange diffchange-inline"><em></ins>A First Course in Mathematical Modeling<ins class="diffchange diffchange-inline"></em></ins>, Third Edition, Thomson Learning, <ins class="diffchange diffchange-inline"><strong></ins>2003<ins class="diffchange diffchange-inline"></strong></ins>, 297-329</a><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> <a name="_ENREF_2" id="<del class="diffchange diffchange-inline">_ENREF_1</del>">[2] RON WEISS, SUBHAYU BASU, SARA HOOSHANGI, ABIGAIL KALMBACH, DAVID KARIG, RISHABH MEHREJA and ILKA NETRAVALI Genetic circuit building blocks for cellular computation, communications, and signal processing, Natural Computing, 2003, 2: 47–84. </a><br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> <a name="_ENREF_2" id="<ins class="diffchange diffchange-inline">_ENREF_2</ins>">[2] RON WEISS, SUBHAYU BASU, SARA HOOSHANGI, ABIGAIL KALMBACH, DAVID KARIG, RISHABH MEHREJA and ILKA NETRAVALI Genetic circuit building blocks for cellular computation, communications, and signal processing, Natural Computing, <ins class="diffchange diffchange-inline"><strong></ins>2003<ins class="diffchange diffchange-inline"></strong></ins>, <ins class="diffchange diffchange-inline"><em></ins>2<ins class="diffchange diffchange-inline"></em></ins>: 47–84. </a><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> <a name="_ENREF_3" id="<del class="diffchange diffchange-inline">_ENREF_1</del>">[3]You L, Cox RS, Weiss R, Arnold FH. Programmed population control by cell-cell communication and regulated killing[J]. Nature, 2004, 428(6985): 868-871. </a></p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> <a name="_ENREF_3" id="<ins class="diffchange diffchange-inline">_ENREF_2</ins>">[3]You L, Cox RS, Weiss R, Arnold FH. Programmed population control by cell-cell communication and regulated killing[J]. <ins class="diffchange diffchange-inline"><em></ins>Nature<ins class="diffchange diffchange-inline"></em></ins>, <ins class="diffchange diffchange-inline"><strong></ins>2004<ins class="diffchange diffchange-inline"></strong></ins>, <ins class="diffchange diffchange-inline"><em></ins>428<ins class="diffchange diffchange-inline"></em></ins>(6985): 868-871. </a></p></div></td></tr>
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</table>Youbinhttp://2012.igem.org/wiki/index.php?title=Team:XMU-China/modeling&diff=184297&oldid=prevYoubin at 01:12, 26 September 20122012-09-26T01:12:10Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p class="tit">Model</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p class="tit">Model</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc01"></a>Introduction</strong><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc01"></a>Introduction</strong><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Ordinary differential equation(s) (ODE) is one of the most popular methods in modeling. Frank R. Giordano and other scientists have introduced it exhaustively. <sup>[1]</sup> In many computational biological researching, researchers often use it to simulate the dynamics part of biological process. The concentrations of RNA, proteins, and other molecules are represented by time-dependent variables. <sup>[2]</sup> We used the same method to construct our model.</p><hr></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Ordinary differential equation(s) (ODE) is one of the most popular methods in modeling. Frank R. Giordano and other scientists have introduced it exhaustively. <sup<ins class="diffchange diffchange-inline">><a href="#_ENREF_1" title="Ron Weiss, 2003 #2"</ins>>[1]<ins class="diffchange diffchange-inline"></a></ins></sup> In many computational biological researching, researchers often use it to simulate the dynamics part of biological process. The concentrations of RNA, proteins, and other molecules are represented by time-dependent variables. <sup<ins class="diffchange diffchange-inline">><a href="#_ENREF_2" title="Ron Weiss, 2003 #2"</ins>>[2]<ins class="diffchange diffchange-inline"></a></ins></sup> We used the same method to construct our model.</p><hr></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc02" id="Toc02"></a>Modeling</strong><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc02" id="Toc02"></a>Modeling</strong><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>First of all, there are 4 variables and 4 parameters in this experience. Their names and meanings are listed below.<table width="740" border="0" align="center" id="commun"></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>First of all, there are 4 variables and 4 parameters in this experience. Their names and meanings are listed below.<table width="740" border="0" align="center" id="commun"></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The initial condition is<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The initial condition is<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/2012/7/74/XMUmodel6.jpg" width="180"><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/2012/7/74/XMUmodel6.jpg" width="180"><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Equation (1) represents the course of growth of <i>E.coli.</i><sup>[3]</sup> Equation (2) represents the course of producing and decomposing GFP. OD<sub>0</sub> and flu<sub>0</sub> is value of OD and flu when t=0.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Equation (1) represents the course of growth of <i>E.coli.</i><sup<ins class="diffchange diffchange-inline">><a href="#_ENREF_3" title="Ron Weiss, 2003 #2"</ins>>[3]<ins class="diffchange diffchange-inline"></a></ins></sup> Equation (2) represents the course of producing and decomposing GFP. OD<sub>0</sub> and flu<sub>0</sub> is value of OD and flu when t=0.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Then, we changed the parameters and figured out the best value for fitting the data of fluorescence intensity.<br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Then, we changed the parameters and figured out the best value for fitting the data of fluorescence intensity.<br></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc04" id="Toc04"></a>Reference</strong><br></p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p><strong class="subtitle"><a name="_Toc04" id="Toc04"></a>Reference</strong><br></p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p align="left">[1] Frank R. Giordano, Maurice D. Weir, William P. Fox, A First Course in Mathematical Modeling, Third Edition, Thomson Learning, 2003, 297-329<br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p align="left<ins class="diffchange diffchange-inline">"><a name="_ENREF_1" id="_ENREF_1</ins>">[1] Frank R. Giordano, Maurice D. Weir, William P. Fox, A First Course in Mathematical Modeling, Third Edition, Thomson Learning, 2003, 297-329<ins class="diffchange diffchange-inline"></a></ins><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> [2] RON WEISS, SUBHAYU BASU, SARA HOOSHANGI, ABIGAIL KALMBACH, DAVID KARIG, RISHABH MEHREJA and ILKA NETRAVALI Genetic circuit building blocks for cellular computation, communications, and signal processing, Natural Computing, 2003, 2: 47–84. <br></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> <ins class="diffchange diffchange-inline"><a name="_ENREF_2" id="_ENREF_1"></ins>[2] RON WEISS, SUBHAYU BASU, SARA HOOSHANGI, ABIGAIL KALMBACH, DAVID KARIG, RISHABH MEHREJA and ILKA NETRAVALI Genetic circuit building blocks for cellular computation, communications, and signal processing, Natural Computing, 2003, 2: 47–84. <ins class="diffchange diffchange-inline"></a></ins><br></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> [3]You L, Cox RS, Weiss R, Arnold FH. Programmed population control by cell-cell communication and regulated killing[J]. Nature, 2004, 428(6985): 868-871. </p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> <ins class="diffchange diffchange-inline"><a name="_ENREF_3" id="_ENREF_1"></ins>[3]You L, Cox RS, Weiss R, Arnold FH. Programmed population control by cell-cell communication and regulated killing[J]. Nature, 2004, 428(6985): 868-871. <ins class="diffchange diffchange-inline"></a></ins></p></div></td></tr>
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