Team:OUC-China/Modeling/NoiseAnalysis

From 2012.igem.org

(Difference between revisions)
 
(18 intermediate revisions not shown)
Line 6: Line 6:
<link rel="stylesheet" href="http://1.oucigem.sinaapp.com/down-icon.css"><!--download pdf css-->
<link rel="stylesheet" href="http://1.oucigem.sinaapp.com/down-icon.css"><!--download pdf css-->
<style>
<style>
 +
#back-top {
 +
position: fixed;
 +
bottom: 60px;
 +
margin-left: 1160px;
 +
}
 +
#back-top a {
 +
width:85px;
 +
display: block;
 +
text-align: center;
 +
font: 11px/100% Arial, Helvetica, sans-serif;
 +
text-transform: uppercase;
 +
text-decoration: none;
 +
color: #bbb;
 +
-webkit-transition: 1s;
 +
-moz-transition: 1s;
 +
transition: 1s;
 +
}
 +
#back-top a:hover {
 +
color: #000;
 +
}
 +
#back-top span {
 +
width: 85px;
 +
height: 85px;
 +
display: block;
 +
margin-bottom: 7px;
 +
background: #B9B7B7 url(https://static.igem.org/mediawiki/2012/5/5e/Ouc-2012-up-arrow.png) no-repeat center center;
 +
-webkit-border-radius: 15px;
 +
-moz-border-radius: 15px;
 +
border-radius: 15px;
 +
-webkit-transition: 1s;
 +
-moz-transition: 1s;
 +
transition: 1s;
 +
}
 +
#back-top a:hover span {
 +
background-color: #777;
 +
}
*{
*{
margin:0;
margin:0;
Line 14: Line 50:
padding:0;
padding:0;
margin:0;
margin:0;
-
overflow-x:hidden;
+
overflow-x:auto;
font: 500 12px/1.625 "Helvetica Neue", Helvetica, Arial, sans-serif;
font: 500 12px/1.625 "Helvetica Neue", Helvetica, Arial, sans-serif;
 +
}
 +
#top-section{
 +
width:99%;
}
}
#page{
#page{
Line 52: Line 91:
}
}
.article-list .list-box p{
.article-list .list-box p{
-
font-family:Georgia;
+
font-family:Arial, sans-serif;
font-size:16px;
font-size:16px;
color: #222;
color: #222;
Line 137: Line 176:
text-align:center;
text-align:center;
margin-top:25px;
margin-top:25px;
-
margin-left:-100px;
+
margin-left:10px;
-
 
+
width:800px;
}
}
#footer-box{
#footer-box{
height: 50px;
height: 50px;
-
width:100%;
+
width:1349px;
margin-top:0;
margin-top:0;
margin-bottom:-10px;
margin-bottom:-10px;
background-color:#1487DF;
background-color:#1487DF;
-
border-top-width:10px;
+
border:none;
-
border-top-color:#F7F5F5;
+
padding-left:0;
-
border-bottom:none;
+
padding-right:0;
}
}
#footer a
#footer a
Line 184: Line 223:
</div>
</div>
<ul class="menu">
<ul class="menu">
-
<li> <a href="#">Home</a> </li>
+
<li> <a href="https://2012.igem.org/Team:OUC-China">Index</a> </li>
-
<li> <a href="#">Project</a> </li>
+
<li> <a href="https://2012.igem.org/Team:OUC-China/Project/Overview">Project</a> </li>
-
<li> <a href="#">Modeing</a> </li>
+
<li> <a href="https://2012.igem.org/Team:OUC-China/Modeling/Overview">Modeling</a> </li>
-
<li> <a href="#">Human Practice</a> </li>
+
<li> <a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Overview">Human Practice</a> </li>
-
<li> <a href="#">Team</a> </li>
+
<li> <a href="https://2012.igem.org/Team:OUC-China/Team/members">Team</a> </li>
-
<li> <a href="#">Parts</a> </li>
+
<li> <a href="https://2012.igem.org/Team:OUC-China/Parts">Parts</a> </li>
-
<li> <a href="#">Safety</a> </li>
+
<li> <a href="https://2012.igem.org/Team:OUC-China/Safety">Safety</a> </li>
-
<li> <a href="#">Note</a> </li>
+
<li> <a href="https://2012.igem.org/Team:OUC-China/labnote">Note</a> </li>
</ul>
</ul>
</div>
</div>
Line 197: Line 236:
<ul class="submenu">
<ul class="submenu">
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/a/af/Projectoverview.jpg" />
-
+
Home
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China#hmo">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/4/49/Humanpracticeoverview.jpg" />
-
+
HumanPractice index
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Judgingform">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/6/6e/Juding-form.jpg" />
-
+
JudgingForm
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/contactus">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/1/1e/Contact-us.jpg" />
 +
Contact Us
 +
</a>
 +
</li>
 +
</ul>
 +
<ul class="submenu">
 +
<li>
 +
<a href="https://2012.igem.org/Team:OUC-China/Project/Overview">
 +
<img src="https://static.igem.org/mediawiki/2012/5/59/Ouc-nav-project-overview.jpg" />
 +
Project Overview
 +
</a>
 +
</li>
 +
<li>
 +
<a href="https://2012.igem.org/Team:OUC-China/Project/Sensor/AbstractandBackground">
 +
<img src="https://static.igem.org/mediawiki/2012/1/15/Ouc-nav-project-secsor.jpg" />
 +
Sensor
 +
</a>
 +
</li>
 +
<li>
 +
<a href="https://2012.igem.org/Team:OUC-China/Project/DesignMaking/Abstract">
 +
<img src="https://static.igem.org/mediawiki/2012/3/34/Ouc-nav-device.jpg" />
 +
Decision-making Device
 +
</a>
 +
</li>
 +
<li>
 +
<a href="https://2012.igem.org/Team:OUC-China/Project/GVP/GasandBackground">
 +
<img src="https://static.igem.org/mediawiki/2012/5/57/Ouc-nav-project-gvp.jpg" />
 +
Gas vesicle
</a>
</a>
</li>
</li>
Line 223: Line 289:
<ul class="submenu">
<ul class="submenu">
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Modeling/ODEModel">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/f/f6/Ouc-nav-modeling-ode.jpg" />
-
+
ODEModel
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Modeling/ParameterSensitivityAnalysis">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/c/cf/Ouc-nav-modeling-sensertitive.jpg" />
-
+
Parameter Sensitivity Analysis
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Modeling/ParameterSweep">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/0/07/Ouc-nav-modeling-sweep.jpg" />
-
+
Parameter Sweep
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Modeling/NoiseAnalysis">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/0/04/Ouc-nav-modeling-noise.jpg" />
-
+
Noise Analysis
</a>
</a>
</li>
</li>
Line 249: Line 315:
<ul class="submenu">
<ul class="submenu">
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Overview">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/6/61/Ouc-nav-humanoverview.jpg" />
-
+
HumanPractice Overview
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Communication">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/c/cc/Ouc-nav-Communication.jpg" />
-
+
Meeting and Academic Communication
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Camps">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/8/8d/Ouc-nav-humcamp.jpg" />
-
+
Camps, Class and Lectures
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/HumanPractice/SpecialHM">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/b/b7/Ouc-nav-hmspcial.jpg" />
-
+
Special HP
</a>
</a>
</li>
</li>
Line 275: Line 341:
<ul class="submenu">
<ul class="submenu">
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Team/members">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/6/6d/Ouc-nav-team.jpg" />
-
+
Team Members
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Team/instructor">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/3/35/Ouc-nav-instructor.jpg" />
-
+
Instructors
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Team/AcknowledgementandCooperation">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/a/a6/Ouc-nav-co.jpg" />
-
+
Acknowledgement&Cooperation
</a>
</a>
</li>
</li>
<li>
<li>
-
<a href="">
+
<a href="https://2012.igem.org/Team:OUC-China/Team/Lab">
-
<img src="" />
+
<img src="https://static.igem.org/mediawiki/2012/a/a7/Ouc-nav-lab.jpg" />
-
+
Lab
 +
</a>
 +
</li>
 +
</ul>
 +
<ul class="submenu">
 +
<li>
 +
<a href="https://2012.igem.org/Team:OUC-China/Parts">
 +
<img src="https://static.igem.org/mediawiki/2012/f/f9/Ouc-nav-parts.jpg" />
 +
Parts
 +
</a>
 +
</li>
 +
</ul>
 +
<ul class="submenu">
 +
<li>
 +
<a href="https://2012.igem.org/Team:OUC-China/Safety">
 +
<img src="https://static.igem.org/mediawiki/2012/5/5d/Ouc-nav-safety.jpg" />
 +
Safety
 +
</a>
 +
</li>
 +
</ul>
 +
<ul class="submenu">
 +
<li>
 +
<a href="https://2012.igem.org/Team:OUC-China/labnote">
 +
<img src="https://static.igem.org/mediawiki/2012/8/8b/Ouc-nav-labnote.jpg" />
 +
Labnote
 +
</a>
 +
</li>
 +
<li>
 +
<a href="https://skydrive.live.com/redir?resid=6A13E80E2A176A23!249&authkey=!AGsNOi9excznIt8">
 +
<img src="https://static.igem.org/mediawiki/2012/4/4e/Ouc-nav-modelingnote.jpg" />
 +
Modeling Note
 +
</a>
 +
</li>
 +
<li>
 +
<a href="https://2012.igem.org/Team:OUC-China/protocol">
 +
<img src="https://static.igem.org/mediawiki/2012/7/7d/Ouc-pro.png" />
 +
Protocols
</a>
</a>
</li>
</li>
Line 319: Line 421:
<span class="a-btn-symbol"><img src="https://static.igem.org/mediawiki/2012/6/6b/Pdf-icon.png"/></span>
<span class="a-btn-symbol"><img src="https://static.igem.org/mediawiki/2012/6/6b/Pdf-icon.png"/></span>
<span class="a-btn-text">Download PDF</span>  
<span class="a-btn-text">Download PDF</span>  
 +
</a>
 +
</div>
 +
<div id="button-wrapper">
 +
<a href="https://static.igem.org/mediawiki/2012/b/b1/Ouc-graph.zip" class="a-btn">
 +
<span class="a-btn-symbol"><img src="https://static.igem.org/mediawiki/2012/d/d7/Ouc-icon.jpg"/></span>
 +
<span class="a-btn-text">Download EPS</span>
</a>
</a>
</div>
</div>
Line 326: Line 434:
                 <div class="list-box">
                 <div class="list-box">
<div class="list-text">
<div class="list-text">
-
<h1>Noise analysis-model</h1>
+
<h1 style="border:none;">Noise analysis-model</h1>
-
<p><strong>Aim:</strong><span></span>To analysis the noise in the ternary system .
+
<p><strong>Aim:</strong><span></span>To figure out whether output is robust when presented with intrinsic noise.
<br/>
<br/>
<br/>
<br/>
Line 333: Line 441:
<br/><span></span>1. Use the Gillespie algorithm to perform the stochastic analysis;
<br/><span></span>1. Use the Gillespie algorithm to perform the stochastic analysis;
<br/><span></span>2. Draw probability distribution figures (pdf);
<br/><span></span>2. Draw probability distribution figures (pdf);
-
<br/><span></span>3. Computing the noise statistically.
+
<br/><span></span>3. Compute the noise statistically.
<br/>
<br/>
<br/>
<br/>
Line 340: Line 448:
We refer to the most classical Gillespie algorithm and lots of improvements have been made by later generation. For example, Sagar Indurkhya et al mentioned that Dynamic Monte Carlo methods are a common means of simulating the time-evolution of chemical systems.The Gillespie Algorithm (SSA) [1] is the standard algorithm for this process, and has inspired a variety of derivative methods that speed up computation, including the Optimized Direct Method (ODM) [2] and the Next Reaction Method (NRM) [3]. These methods, however, are still computationally costly.Now,we still use the classical algorithm.:
We refer to the most classical Gillespie algorithm and lots of improvements have been made by later generation. For example, Sagar Indurkhya et al mentioned that Dynamic Monte Carlo methods are a common means of simulating the time-evolution of chemical systems.The Gillespie Algorithm (SSA) [1] is the standard algorithm for this process, and has inspired a variety of derivative methods that speed up computation, including the Optimized Direct Method (ODM) [2] and the Next Reaction Method (NRM) [3]. These methods, however, are still computationally costly.Now,we still use the classical algorithm.:
<br/><br/>
<br/><br/>
-
<p>ηij is use to describe the noise, where:
+
<p>ηij is used to describe the noise, where:
<br/><span></span>
<br/><span></span>
<a><img style="margin-left:270px;" src="https://static.igem.org/mediawiki/2012/3/32/Ouc-modeling-math20.JPG" /></a>
<a><img style="margin-left:270px;" src="https://static.igem.org/mediawiki/2012/3/32/Ouc-modeling-math20.JPG" /></a>
Line 348: Line 456:
<br/>
<br/>
<p><span></span>The value of noise is ηi2 .
<p><span></span>The value of noise is ηi2 .
-
If the mean([m]1:1)-mean([m]1:2) > 5 times the noise, we identify the output wouldn’t be drown in noise.
+
If the mean([m]1:1)-mean([m]1:2) >> the value of noise, we identify the output wouldn’t be drown in noise.
<br/>
<br/>
<br/><span></span>
<br/><span></span>
Line 357: Line 465:
<p>  
<p>  
<br/>
<br/>
-
<a><img src="https://static.igem.org/mediawiki/2012/a/a2/Ouc-rs2.png"></a>
+
<a><img style="margin-left:50px;" src="https://static.igem.org/mediawiki/2012/1/1b/Ouc-R1L.jpg" /></a>
 +
<a><img style="margin-left:380px; margin-top:-230px;" src="https://static.igem.org/mediawiki/2012/d/d0/Ratiop0R.jpg" /></a>
 +
<a><img style="margin-left:50px; margin-top:-30px;"src="https://static.igem.org/mediawiki/2012/6/6c/Ouc-R2L.jpg" /></a>
 +
<a><img style="margin-left:380px; margin-top:-230px;" src="https://static.igem.org/mediawiki/2012/7/74/Ratiop1R.jpg" /></a>
 +
<a><img style="margin-left:50px; margin-top:-30px;" src="https://static.igem.org/mediawiki/2012/9/98/Ouc-R3L.jpg" /></a>
 +
<a><img style="margin-left:380px; margin-top:-230px;" src="https://static.igem.org/mediawiki/2012/b/b0/Ratiop2R.jpg" /></a>
<br/>
<br/>
<p style="text-align:center; font-size:90%;">Fig.1 Pdf means probability distribution frequency  
<p style="text-align:center; font-size:90%;">Fig.1 Pdf means probability distribution frequency  
Line 363: Line 476:
<br/>
<br/>
<br/>
<br/>
-
<p>The corresponding calculation of statistics are given below:
+
<p>The statistics is given below:
<br/>
<br/>
<br/>
<br/>
<a><img src="https://static.igem.org/mediawiki/2012/5/52/Ouc-rs_analysis2.png"></a>
<a><img src="https://static.igem.org/mediawiki/2012/5/52/Ouc-rs_analysis2.png"></a>
-
<br/><br/><p style="text-align:center; font-size:90%;">Table 1:using the Gillespie algorithm, we get the mean and variance when as1:as2 equal to 0.5,1,2.</p>
 
-
 
-
 
<br/>
<br/>
<br/>
<br/>
-
<h2>Comparator</h2>
 
<br/>
<br/>
-
<p><span></span>We have done the same thing in the comparator. The differences are the km and ks , which values are from the parameter sweep.
 
<br/>
<br/>
 +
 +
<h2>Comparator</h2>
<br/>
<br/>
-
<a><img src="https://static.igem.org/mediawiki/2012/1/18/Ouc-modeling-math22.jpg"></a>
 
-
<a><img style="margin-left:380px; margin-top: -290px;" src="https://static.igem.org/mediawiki/2012/b/b2/Ouc-modeling-math31.jpg"></a>
 
-
<a><img src="https://static.igem.org/mediawiki/2012/1/15/Ouc-modeling-math32.jpg"></a>
 
-
<a><img style="margin-left:380px; margin-top: -290px;" src="https://static.igem.org/mediawiki/2012/b/bc/Ouc-modeling-math25.jpg"></a>
 
-
<a><img src="https://static.igem.org/mediawiki/2012/e/e2/Ouc-modeling-math34.jpg"></a>
 
-
<a><img style="margin-left:380px; margin-top: -290px;" src="https://static.igem.org/mediawiki/2012/9/9b/Ouc-modeling-math35.jpg"></a>
 
-
<br/><p style="text-align:center; font-size:90%;">Figure 2: the same principle is used the comparator. the left are the sRNA and mRNA change with time goes by. The right are the mRNA of probability distribution frequency (pdf)</p>
 
<br/>
<br/>
 +
<a><img style="margin-left:50px;" src="https://static.igem.org/mediawiki/2012/d/de/Comparator0.jpg" /></a>
 +
<a><img style="margin-left:380px; margin-top:-230px;" src="https://static.igem.org/mediawiki/2012/5/51/Ouc-R1R.jpg" /></a>
 +
<a><img style="margin-left:50px; margin-top:-30px;"src="https://static.igem.org/mediawiki/2012/2/27/Comparator1.jpg" /></a>
 +
<a><img style="margin-left:380px; margin-top:-230px;" src="https://static.igem.org/mediawiki/2012/0/02/Ouc-R2R.jpg" /></a>
 +
<a><img style="margin-left:50px; margin-top:-30px;" src="https://static.igem.org/mediawiki/2012/c/c3/Comparator2.jpg" /></a>
 +
<a><img style="margin-left:380px; margin-top:-230px;" src="https://static.igem.org/mediawiki/2012/b/b8/Ouc-R3R.jpg" /></a>
 +
 +
<br/><p style="text-align:center; font-size:90%;">Fig.2 Pdf stands for probability distribution frequency.</p>
<br/>
<br/>
-
<p>then we compute the noise :
 
<br/>
<br/>
 +
<p>The statistics is given below:
<br/>
<br/>
-
<a><img style="margin-left:65px;" src="https://static.igem.org/mediawiki/2012/5/58/Ouc-modeling-math36.jpg"></a>
 
-
<br/><br/><p style="text-align:center; font-size:90%;">Table 3:Using the Gillespie algorithm, we get the mean and variance values when as1:as2 equal to 0.5,1</p><br/>
 
<br/>
<br/>
-
<br/>
+
<a><img src="https://static.igem.org/mediawiki/2012/c/c4/Ouc-c_analysis2.png"></a>
-
<a><img style="margin-left:65px;" src="https://static.igem.org/mediawiki/2012/7/7f/Ouc-modeling-math37.jpg"></a>
+
-
<br/><br/><p style="text-align:center; font-size:90%;">Table 4: From the table, We can conclude that the noise is also very small .<br/>
+
-
<br/><br/><p><span></span>Then we calculate the noise value
+
-
From the table 4 ,we can observe that the mean of mRNA>>difference value between as1:as2=1 and 0.5.At the same time, the mean of mRNA>>difference value between as1:as2=1 and 2. So when as1:as2 is equal to 1:1,the equilibrium concentration isn’t drown the noise.
+
<br/>
<br/>
<br/>
<br/>
 +
<h2>Conclusion</h2>
<h2>Conclusion</h2>
<br/>
<br/>
-
<p><span></span> By using the noise analysis, we can conclude that the mRNA isn’t drawn the noise,. that’s  by simulating the real organism, our model also meets the requirements to design the experiment.
+
<p><span></span>Both ratio sensor and comparator, the change of mRNA concentration is robust enough when presented with noise(mean([m]1:1)-mean([m]1:2) >> noise).It is rational to design our device by this parameter sets.
<br/>
<br/>
<br/>
<br/>
Line 434: Line 540:
</div>
</div>
</div>
</div>
 +
<p id="back-top">
 +
<a href="#top"><span></span>Back to Top</a>
 +
</p>
</body>
</body>
 +
<script>
 +
$(document).ready(function(){
 +
// hide #back-top first
 +
$("#back-top").hide();
 +
 +
// fade in #back-top
 +
$(function () {
 +
$(window).scroll(function () {
 +
if ($(this).scrollTop() > 100) {
 +
$('#back-top').fadeIn();
 +
} else {
 +
$('#back-top').fadeOut();
 +
}
 +
});
 +
 +
// scroll body to 0px on click
 +
$('#back-top a').click(function () {
 +
$('body,html').animate({
 +
scrollTop: 0
 +
}, 800);
 +
return false;
 +
});
 +
});
 +
});
 +
</script>
<script src="http://www.google-analytics.com/urchin.js" type="text/javascript">
<script src="http://www.google-analytics.com/urchin.js" type="text/javascript">
</script>
</script>

Latest revision as of 04:04, 27 October 2012

Noise analysis-model

Aim:To figure out whether output is robust when presented with intrinsic noise.

Steps:
1. Use the Gillespie algorithm to perform the stochastic analysis;
2. Draw probability distribution figures (pdf);
3. Compute the noise statistically.

Background:After having determined the parameter range, we would make the noise analysis.According to theoretical predictions, elementary chemical reactions involved in biochemical processes exhibit substantial stochastic fluctuations when low numbers of reactant molecules are involved within the small volume of a living cell. The existence of significant stochastic fluctuations in biochemical processes has been confirmed by numerous experiments including tracking of individual protein molecules in individual cells in gene expression processes[Zhou L, Gregori G, Blackman J,Robinson J, Wanner B (2005) Stochastic activation of the response regulator PhoB by noncognate histidine kinases.J Integrative Bioinformatics 2: 11.] We refer to the most classical Gillespie algorithm and lots of improvements have been made by later generation. For example, Sagar Indurkhya et al mentioned that Dynamic Monte Carlo methods are a common means of simulating the time-evolution of chemical systems.The Gillespie Algorithm (SSA) [1] is the standard algorithm for this process, and has inspired a variety of derivative methods that speed up computation, including the Optimized Direct Method (ODM) [2] and the Next Reaction Method (NRM) [3]. These methods, however, are still computationally costly.Now,we still use the classical algorithm.:

ηij is used to describe the noise, where:

σ ij stands for standard deviation and represents the mean value. If i=j then



The value of noise is ηi2 . If the mean([m]1:1)-mean([m]1:2) >> the value of noise, we identify the output wouldn’t be drown in noise.

Result_Ratio sensor




Fig.1 Pdf means probability distribution frequency



The statistics is given below:





Comparator




Fig.2 Pdf stands for probability distribution frequency.



The statistics is given below:



Conclusion


Both ratio sensor and comparator, the change of mRNA concentration is robust enough when presented with noise(mean([m]1:1)-mean([m]1:2) >> noise).It is rational to design our device by this parameter sets.

Back to Top