Difference between revisions of "Team:SJTU-BioX-Shanghai/Signal Pathway-cn"

 
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                         <p>我们的模型帮助描述了多因子可视化检测系统的细胞内反应。我们也有它来分析和评估我们的合成生物学系统。模型在Simbiology，MATLAB的工具箱下完成。</p>
 
                         <p>我们的模型帮助描述了多因子可视化检测系统的细胞内反应。我们也有它来分析和评估我们的合成生物学系统。模型在Simbiology，MATLAB的工具箱下完成。</p>
 
                         <p>从图表中可以看出，我们找到了几个典型的变量变化的模式。<a class="lin" target="_blank" href="https://2017.igem.org/Team:SJTU-BioX-Shanghai/Results">实验结果</a>与我们的模型吻合的很好。 </p>
 
                         <p>从图表中可以看出，我们找到了几个典型的变量变化的模式。<a class="lin" target="_blank" href="https://2017.igem.org/Team:SJTU-BioX-Shanghai/Results">实验结果</a>与我们的模型吻合的很好。 </p>
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                         <div class="my-title h5-my-responsive" id="section2">Pathway Illustration</div>
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                         <div class="my-title h5-my-responsive" id="section2">通路图解</div>
 
                         <div class="figure-intro">
 
                         <div class="figure-intro">
 
                             <img src="https://static.igem.org/mediawiki/2017/6/6f/Pathw1.png" class="img-fluid">
 
                             <img src="https://static.igem.org/mediawiki/2017/6/6f/Pathw1.png" class="img-fluid">
 
                             <div class="figure-text"><strong>Figure1: Signal Pathway construct</strong>Inducers enters the cell, activates receptor and binding with repressor protein, leading to antisense producing. Then antisense binds with STAR. Finally sfGFP expression starts.</div>
 
                             <div class="figure-text"><strong>Figure1: Signal Pathway construct</strong>Inducers enters the cell, activates receptor and binding with repressor protein, leading to antisense producing. Then antisense binds with STAR. Finally sfGFP expression starts.</div>
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                         <div class="my-title h5-my-responsive" id="section3">Reaction</div>
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                         <div class="my-title h5-my-responsive" id="section3">反应</div>
 
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   <p>You probably don't have a PDF plugin for this browser.
 
   <p>You probably don't have a PDF plugin for this browser.
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   You can <a href="https://static.igem.org/mediawiki/2017/c/c1/T--SJTU-BioX-Shanghai--wcw5.pdf">click here</a> to
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   下载<a href="https://static.igem.org/mediawiki/2017/c/c1/T--SJTU-BioX-Shanghai--wcw5.pdf">PDF文件</a> 查看。</p>   
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  download the PDF file.</p>   
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                         <div class="my-title h5-my-responsive" id="section4">Simulation Results</div>
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                         <div class="my-title h5-my-responsive" id="section4">模拟结果</div>
 
                         <div class="figure-intro">
 
                         <div class="figure-intro">
 
                             <img src="https://static.igem.org/mediawiki/2017/2/2b/T--SJTU-BioX-Shanghai--wcw4.png" class="img-fluid">
 
                             <img src="https://static.igem.org/mediawiki/2017/2/2b/T--SJTU-BioX-Shanghai--wcw4.png" class="img-fluid">
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                         <p>From these figures, we find several typical patterns of species variation. And the <a target="_blank" href="https://2017.igem.org/Team:SJTU-BioX-Shanghai/Results">Results</a> of our experiments also fits these patterns well.</p>
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                         <p>从这些图中，我们发现几个典型的变量变化的模式。<a target="_blank" href="https://2017.igem.org/Team:SJTU-BioX-Shanghai/Results">实验结果</a>与模型吻合的很好。</p>
  
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                         <div class="my-title h5-my-responsive" id="section5">Parameters</div>
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                         <div class="my-title h5-my-responsive" id="section5">参数</div>
  
 
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                         <div class="my-title h5-my-responsive" id="section6">Species</div>
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                         <div class="my-title h5-my-responsive" id="section6">变量</div>
 
                         <div class="figure-intro">
 
                         <div class="figure-intro">
 
                             <table class="table table-res table-res2 table-hover" align="center">
 
                             <table class="table table-res table-res2 table-hover" align="center">

Latest revision as of 00:18, 16 December 2017

信号通路
信号通路模型

我们的模型帮助描述了多因子可视化检测系统的细胞内反应。我们也有它来分析和评估我们的合成生物学系统。模型在Simbiology，MATLAB的工具箱下完成。

从图表中可以看出，我们找到了几个典型的变量变化的模式。实验结果与我们的模型吻合的很好。

通路图解
Figure1: Signal Pathway constructInducers enters the cell, activates receptor and binding with repressor protein, leading to antisense producing. Then antisense binds with STAR. Finally sfGFP expression starts.
反应

You probably don't have a PDF plugin for this browser. 下载PDF文件 查看。
模拟结果
Figure2: sfGFP degradation over time.
Figure3: antiSTAR1 variation over time.
Figure4: STAR & STAR_complex variation over time.
Figure5: sfGFP& STAR_complex variation over time.

从这些图中，我们发现几个典型的变量变化的模式。实验结果与模型吻合的很好。

参数
Parameters Reaction Value Reaction Type
maxVproduceAsRprotein AsrR + RNA_polymerase -> AsrR + RNA_polymerase + AsrR_protein 0.6 MassAction
RNApolyConstant All Reaction with Polymerase 1
kr_AsR_complex As + AsrR_protein <-> AsR_complex 0.8 MassAction
kf_AsR_complex As + AsrR_protein <-> AsR_complex 0.05 MassAction
maxVproduceanti RNA_polymerase + Promoter_STAR1 -> RNA_polymerase + Promoter_STAR1 + antiSTAR1 60 Competitive-Inhibition
AsrRproteinRepressConstant RNA_polymerase + Promoter_STAR1 -> RNA_polymerase + Promoter_STAR1 + antiSTAR1 10 Competitive-Inhibition
kf_STAR1complex antiSTAR1 + STAR1 <-> STAR1_complex 50 MassAction
kr_STAR1complex antiSTAR1 + STAR1 <-> STAR1_complex 0.8 MassAction
maxVproducesfGFP Promoter_target + RNA_polymerase -> Promoter_target + RNA_polymerase + sfGFP 100 Competitive-Inhibition
antiRepressConstant Promoter_target + RNA_polymerase -> Promoter_target + RNA_polymerase + sfGFP 10 Competitive-Inhibition
kd_AsrR AsrR -> null 0.007 MassAction
kd_RNA_polymerase RNA_polymerase -> null 0.007 MassAction
kd_AsrR_protein AsrR_protein -> null 0.007 MassAction
kd_antiSTAR antiSTAR1 -> null 0.007 MassAction
kd_STAR STAR1 -> null 0.007 MassAction
kd_STARcomplex STAR1_complex -> null 0.007 MassAction
kd_sfGFP sfGFP -> null 0.007 MassAction
Table1
变量
Species Description Initial Value
AsrR As repressor sequence 100
RNA_polymerase RNA polymerase 2000
antiSTAR antiSTAR sequence which binds with STAR to promote sfGFP 0
STAR Small Transcription Activated RNA 200
STAR_complex Complex of STAR&antiSTAR 100
sfGFP Fluorescence Protein which displays green color 541.5
AsrR_protein As repressor protein 200
As As as an inducer 1000
AsR_complex Complex of AsrR_protein&Promoter_STAR 0
Promoter_STAR Promoter which generates antiSTAR sequence 60
Promoter_target Promoter which is repressed by STAR 80
Table2
建模
概述
建模
色彩图表