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- | <h2 id="titleText" style="color:rgb(137,202,154);">Tsinghua-A::Modeling</h2> | + | <h2 id="titleText" style="color:rgb(137,202,154);">Tsinghua-A::<span style="color: rgb(12,117,34);">Modeling</style></h2> |
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- | <h2 class="textTitle">Mathematical Model:D</h2> | + | <h2 class="textTitle" style="font-size:38px;">Mathematical Model:DDE equations</h2> |
| <div class="entry-content"> | | <div class="entry-content"> |
- | <p>The mathematical model of the whole process can be divided into two parts:Part 1: Construction of DDE equations to describe the process of the generation of Cre protein and Cre protein binding to Loxp sites.Part 2: Using Gillespie algorithm to simulate the stochastic process of the reversal after Cre binds to Loxp sites.<a class="textLink" href="/part1">readmore</a></p> | + | <p>We construct DDE equations to describe the process of the generation of Cre protein and Cre protein binding to Loxp sites. The result shows that the concentration of Cre protein and Cre protein binding to Loxp sites grow to a peak and then degrade to zero. <a class="textLink" href="https://2012.igem.org/Team:Tsinghua-A/Modeling/DDE">readmore</a></p> |
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- | <h2 class="textTitle">Mathematical Model:G</h2> | + | <h2 class="textTitle" style="font-size:34px;">Mathematical Model:GILLESPIE algorithm</h2> |
| <div class="entry-content"> | | <div class="entry-content"> |
- | <p>The mathematical model of the whole process can be divided into two parts:Part 1: Construction of DDE equations to describe the process of the generation of Cre protein and Cre protein binding to Loxp sites.Part 2: Using Gillespie algorithm to simulate the stochastic process of the reversal after Cre binds to Loxp sites.<a class="textLink" href="/part1">readmore</a></p> | + | <p>We use Gillespie algorithm to simulate the stochastic process of the reversal after Cre binds to Loxp sites. We can see from the result of this part that the inversion only happens when Cre protein binding to Loxp sites exists and about 50% of genes flip to the state we want.<a class="textLink" href="https://2012.igem.org/Team:Tsinghua-A/Modeling/GILLESPIE">readmore</a></p> |
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| <h2 class="textTitle">Sensitivity Analysis</h2> | | <h2 class="textTitle">Sensitivity Analysis</h2> |
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- | <p>We analyze three parameters and the third parameter –the degradation rate of Cre protein –have an obvious effect on the final percent of the genes in different state.<a class="textLink" href="/part1">readmore</a></p> | + | <p>We analyze three parameters and the third parameter –the degradation rate of Cre protein –have an obvious effect on the final percent of the genes in different state.<a class="textLink" href="https://2012.igem.org/Team:Tsinghua-A/Modeling/Sensitivity">readmore</a></p> |
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| <h2 class="textTitle">Feedforward</h2> | | <h2 class="textTitle">Feedforward</h2> |
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- | <p> By introducing a feed forward to the system, we increase the percent of the genes flipping to the state we want.And the system is more stable.<a class="textLink" href="/part1">readmore</a></p> | + | <p> By introducing a feed forward to the system, we increase the percent of the genes flipping to the state we want.And the system is more stable.<a class="textLink" href="https://2012.igem.org/Team:Tsinghua-A/Modeling/Feedforward">readmore</a></p> |
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- | <h2 class="textTitle">Reference</h2> | + | <h2 class="textTitle">References</h2> |
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| <p>[1] MEGERLE J A, FRITZ G, GERLAND U, et al. Timing and dynamics of single cell gene expression in the arabinose utilization system [J]. Biophys J, 2008, 95(4): 2103-15.<br/> | | <p>[1] MEGERLE J A, FRITZ G, GERLAND U, et al. Timing and dynamics of single cell gene expression in the arabinose utilization system [J]. Biophys J, 2008, 95(4): 2103-15.<br/> |
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| <a class="navigationButtonA" href="#" style="color:rgb(137,202,154);">Introduction</a></li> | | <a class="navigationButtonA" href="#" style="color:rgb(137,202,154);">Introduction</a></li> |
- | <li class="navigationButton" id="navigationBarDetail0" style="background-color: rgb(233,244,233);"> | + | <li class="navigationButton" id="navigationBarDetail0" style="background-color: rgb(233,244,233);height:65px;"> |
- | <a class="navigationButtonA" href="#" style="color:rgb(137,202,154);">Mathematical Model-DDE</a></li> | + | <a class="navigationButtonA" href="#2" style="color:rgb(137,202,154);">Mathematical Model-DDE equations</a></li> |
- | <li class="navigationButton" id="navigationBarDetail0" style="background-color: rgb(233,244,233);"> | + | <li class="navigationButton" id="navigationBarDetail0" style="background-color: rgb(233,244,233); height:80px;"> |
- | <a class="navigationButtonA" href="#" style="color:rgb(137,202,154);">Mathematical Model-GILLESPIE</a></li> | + | <a class="navigationButtonA" href="#3" style="color:rgb(137,202,154);">Mathematical Model-GILLESPIE algorithm</a></li> |
- | <li class="navigationButton" id="navigationBarDetail0" style="background-color: rgb(233,244,233);"> | + | <li class="navigationButton" id="navigationBarDetail0" style="background-color: rgb(233,244,233);height:45px;"> |
- | <a class="navigationButtonA" href="#" style="color:rgb(137,202,154);">Sensitivity Analysis</a></li> | + | <a class="navigationButtonA" href="#4" style="color:rgb(137,202,154);">Sensitivity Analysis</a></li> |
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- | <a class="navigationButtonA" href="#" style="color:rgb(137,202,154);">Feedforward</a></li> | + | <a class="navigationButtonA" href="#5" style="color:rgb(137,202,154);">Feedforward</a></li> |
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- | <a class="navigationButtonA" href="#" style="color:rgb(137,202,154);">Reference</a></li> | + | <a class="navigationButtonA" href="#6" style="color:rgb(137,202,154);">References</a></li> |
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