Latest revision as of 12:42, 27 October 2011

Team:USTC-Software - 2011.igem.org

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Lachesis

Team

Our team is formed of a group of diligent students coming from various departments of USTC. In the School of Life Sciences, we devoted our perspirations to this project for nearly a year.

Details

Models

Biological reaction networks, even small ones, contain a lot of species and reactions and, thus, are hard to build by hand. Our rule-based modeling approach aims at freeing human from such labor.

Details

Human practice

We conducted a survey, during the National Science Week, to discover USTC students' opinion on Synthetic Biology.

Details

Project

Our project this year is named Lachesis, which consists of the following

1.Automatic generation of biological reaction network simply from biobrick assemblys.
2.Data exchange,Reaction network visualization.
3.Automatic parameter fitting of a mathematical model for a desired behavior, according to experiment data or hand drawn curves using evolution algorithm.
4.Evaluation of the workablility or robustness of a biological reaction network using pca and entropy.

Details

Sponsers

Vistor

Welcome to University of Science and Technology of China !

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+	//Set Default State of each portfolio piece
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-<!-- Javascript-->
 </head>
 <body>
-<div id="header_wrapper">
-    <div id="header">
+<div id="content_wrapper">
-   		<div id="site_title">
+<div align="center">
-            <h1><img src="https://static.igem.org/mediawiki/2011/b/b8/USTC_Software_iGEM_logo.jpg" alt="iGEM" width="173" height="150" /> </br> </br> USTC-Software </h1>
+<table id="rotator_news">
+<tr>
+<td id="window_images">
+<div class="main_view">
+    <div class="window">
+        <div class="image_reel">
+                    <img src="https://static.igem.org/mediawiki/2011/b/bf/USTC_Software_L001.png" style=" margin-right:0px; width:650px; height:400px" alt="" />
+                    <img src="https://static.igem.org/mediawiki/2011/d/da/USTC_Software_L002.png" style=" margin-right:0px; width:650px; height:400px" alt="" />
+                    <img src="https://static.igem.org/mediawiki/2011/e/e6/USTC_Software_L003.png" style=" margin-right:0px; width:650px; height:400px" alt="" />
+                    <img src="https://static.igem.org/mediawiki/2011/9/96/USTC_Software_L004.png" style=" margin-right:0px; width:650px; height:400px" alt="" />
+                    <img src="https://static.igem.org/mediawiki/2011/6/60/USTC_Software_L005.png" style=" margin-right:0px; width:650px; height:400px" alt="" />
+                    <img src="https://static.igem.org/mediawiki/2011/2/22/USTC_Software_L006.png" style=" margin-right:0px; width:650px; height:400px" alt="" />
+                    <img src="https://static.igem.org/mediawiki/2011/b/ba/USTC_Software_L007.png" style=" margin-right:0px; width:640px; height:400px" alt="" />
          </div>
-<!-- navigation -->
+    </div>
-	<ul id="nav">
+    <div class="paging">
-		<li><a class="on" href="https://2011.igem.org/Team:USTC-Software">Home</a></li>
+        <a href="#" rel="1">1</a>
+        <a href="#" rel="2">2</a>
+        <a href="#" rel="3">3</a>
-    		<li><a href="https://2011.igem.org/Team:USTC-Software/project">Project</a>
+        <a href="#" rel="4">4</a>
-			<ul>
+        <a href="#" rel="5">5</a>
-				<li><a href="https://2011.igem.org/Team:USTC-Software/documents">Documents Parser & Models </a></li>
+        <a href="#" rel="6">6</a>
-				<li><a href="#">Views</a>
+        <a href="#" rel="7">7</a>
-                                   <ul>
-                                      <li><a href="https://2011.igem.org/Team:USTC-Software/aview">Assembly View</a></li>
-                                      <li><a href="https://2011.igem.org/Team:USTC-Software/bview">Behavior View</a></li>
-                                      <li><a href="https://2011.igem.org/Team:USTC-Software/nview">Network View</a></li>
-                                   </ul>
-                                </li>
-                                <li><a href="#">Technology & Algorithm</a>
-                                   <ul>
-                                     <li><a href="https://2011.igem.org/Team:USTC-Software/parameter">parameter analysis</a></li>
-                                     <li><a href="https://2011.igem.org/Team:USTC-Software/model">MoDeL</a></li>
-                                   </ul>
-                                 </li>
-                                <li><a href="https://2011.igem.org/Team:USTC-Software/tutorial">Tutorial & Demo</a></li>
-			</ul>
-		</li>
-                <li><a href="https://2011.igem.org/Team:USTC-Software/notebook">Notebook</a></li>
-		<li><a href="https://2011.igem.org/Team:USTC-Software/team">Team</a>
-                          <ul>
-                            <li><a href="https://2011.igem.org/Team:USTC-Software/members">members</a></li>
-                            <li><a href="https://2011.igem.org/Team:USTC-Software/collaboration">collaboration</a></li>
-                            <li><a href="https://2011.igem.org/Team:USTC-Software/attribution">attribution & contributions</a></li>
-                            <li><a href="https://2011.igem.org/Team:USTC-Software/acknowledgements">acknowledgements</a></li>
-                          </ul>
-                 </li>
-  		<li><a href="https://2011.igem.org/Team:USTC-Software/human practice">Human practice</a>
-			   <ul>
-			     <li><a href="https://2011.igem.org/Team:USTC-Software/safety">safety</a></li>
-			     <li><a href="https://2011.igem.org/Team:USTC-Software/meetup">meetup</a></li>
-			   </ul>
-		</li>
-		<li><a class="last" href="https://2011.igem.org/Team:USTC-Software/download">Download</a></li>
-	</ul>
-<!-- // end of navigation -->
-  <div id="search_box">
-  <form action="http://www.google.com.hk/cse" id="cse-search-box" method="get" target="_blank" >
-    <input type="text" value="SEARCH..." name="q" size="10" id="searchfield" title="searchfield" onFocus="clearText(this)" onBlur="clearText(this)" />
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-    <input type="submit" name="sa" value="I'm Feeling Lucky" />
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-<script src="http://www.google.com/jsapi" type="text/javascript"></script>
-<script type="text/javascript">
-  google.load('search', '1', {language : 'en', style : google.loader.themes.GREENSKY});
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-    customSearchControl.setResultSetSize(google.search.Search.FILTERED_CSE_RESULTSET);
-    customSearchControl.draw('cse');
-  }, true);
-</script>
-  </div>
+     </div>
+</div> <!-- close "main_view" div -->
-       <div id="clock_box">
+</td>
-         <script type=text/javascript>
+</tr>
-              document.write('<font  id="clock" color="#000000"> </font>');setInterval('Clock()',1000);</script>
+</table>
-      </div>
+</div>
+<br/><br/>
-   	  <div class="cleaner"></div>
-     </div> <!-- end of header -->
-</div>
-<!-- end of header_wrapper -->
-<div id="content_wrapper">
-<!-- Content wrap -->
-		<div>
-		<div id="left_content">
-		<div class="slider_item">
-		<div align="center">  <img src="https://static.igem.org/mediawiki/2011/3/31/USTC_Software_001.png" alt="big_img_1" width="555"/> </div>
-		        <h3>What is iGEM?</h3>
-				<p>The International Genetically Engineered Machine competition (iGEM) is the premiere undergraduate Synthetic Biology competition. Student teams are given a kit of biological parts at the beginning of the summer from the Registry of Standard Biological Parts. Working at their own schools over the summer, they use these parts and new parts of their own design to build biological systems and operate them in living cells. This project design and competition format is an exceptionally motivating and effective teaching method.</p>
-                  <a href="https://igem.org/About">Read more...</a>
-		</div>
-		<div class="slider_item">
-		   <div align="center"> <img src="https://static.igem.org/mediawiki/2011/6/61/USTC_Software_002.png" alt="big_img_2" width="555"/> </div>
-                <h3>What is Project Lachesis?</h3>
-				<p>The project Lachesis aims at providing and integrated, easy-using and extensible CAD environment for the general purpose of Synthetic Biology, it adopts an plug-in based structure.We provide three categories of plug-ins:Document parsers that handles various types of files, such as SBML andMoDeL. Models that each represents a specific kind of synthetic biological
-model. Views that present graphical user interface for users to work with biological models.</p>
-                  <a href="https://2011.igem.org/Team:USTC-Software/project">Read more...</a>
-		</div>
-			<div class="slider_item">
-	<div align="center"> <img src="https://static.igem.org/mediawiki/2011/f/f4/USTC_Software_003.png" alt="big_img_3" width="555"/></div>
-                <h3>Where are we from?</h3>
-				<p>The University of Science and Technology of China (USTC) is under the jurisdiction of the Chinese Academy of Sciences (CAS).
-                 As a key university of the nation, it is noted for its advanced science and high technology programs, unique management studies and well-tailored disciplines in the humanities.
-                 On May 11, the Nature Publishing Group released Nature Publishing Index 2010 China, remarking "a dramatic rise in the quality of research being published by China". University of Science and Technology of China is ranked 3rd of TOP 10 Institutions in Index 2010 China.
-              </p>
-			  <a href="http://en.ustc.edu.cn/about/">Read more...</a>
-		  </div>
-		</div>
-		</div>
-     <!-- // Content wrap -->
-<br/><br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/>  <br/> <br/> <br/>  <br/> <br/> <br/>
          <h1>Lachesis</h1>
@@ Line 747: / Line 114: @@
    <div>
-        <div class="content_section">
+    <div class="content_section">
              <div class="intro_box margin_r10">
@@ Line 754: / Line 121: @@
                  <img src="https://static.igem.org/mediawiki/2011/7/78/USTC_Software_image_02.jpg" alt="product" />
-               <p class="intro">Our team is formed of a group of diligent students coming from various departments of USTC. In the School of Life Sciences, we devoted out perspiration to this project for nearly a year. <div class="button_01">
+               <p class="intro">Our team is formed of a group of diligent students coming from various departments of USTC. In the School of Life Sciences, we devoted our perspirations to this project for nearly a year. <div class="button_01">
 <a href="https://2011.igem.org/Team:USTC-Software/team">Details</a> </div> </p> </div>
              <div class="intro_box margin_r10">
-	            <h3>MoDeL</h3>
+	            <h3>Models</h3>
                  <img src="https://static.igem.org/mediawiki/2011/c/c8/USTC_Software_image_03.jpg" alt="product" />
-               <p class="intro">Biological reaction networks, even small ones, contain lot of species and reaction and, thus, are hard to build by hand. Our rule-based modeling approch aims at freeing human from such labor.
+               <p class="intro">Biological reaction networks, even small ones, contain a lot of species and reactions and, thus, are hard to build by hand. Our rule-based modeling approach aims at freeing human from such labor.
                <div class="button_01">
@@ Line 768: / Line 135: @@
                  <img src="https://static.igem.org/mediawiki/2011/3/3c/USTC_Software_image_04.jpg" alt="product" />
-               <p class="intro">We conducted a survey, during National Science Week, to discover USTC students' opinion on Synthetic
+               <p class="intro">We conducted a survey, during the National Science Week, to discover USTC students' opinion on Synthetic
 Biology.<div class="button_01"> <a href="https://2011.igem.org/Team:USTC-Software/human practice">Details</a> </div> </p> </div>
              <div class="cleaner"></div>
-        </div>
+    </div>
          <div class="cleaner_h40"></div>
-        <div class="content_section">
+    <div class="content_section">
          <h2>Project</h2>
-       	  <img src="https://static.igem.org/mediawiki/2011/f/fd/USTC_Software_image_05.jpg" alt="image" width="363" class="fl_image" />
+   	  <img src="https://static.igem.org/mediawiki/2011/f/fd/USTC_Software_image_05.jpg" alt="image" width="363" class="fl_image" />
-     <p><span lang="EN-US" xml:lang="EN-US">USTC 2011 Dry Team has worked on a software named Lanchesis.</span></p>
+     <p>
-            <div><span lang="EN-US" xml:lang="EN-US">
+<span lang="EN-US" xml:lang="EN-US">Our project this year is named Lachesis, which consists of the following</span>
-<p>It is a software mainly worked on:</p>
+<br/>
-<P>1、Automatically generating the regulation network according to the assembly constructed by users</P>
-<p>2、Geting the parameter space of a Biology Network which make the Network have the predict behaviour.</p>
+           <div><span lang="EN-US" xml:lang="EN-US">
-<p>3、Evaluating the sensitivity of a Biology Network using PCA analysis.</p>
+.Automatic generation of biological reaction network simply from biobrick assemblys.<br/>
-<p>4、Making Biology Network easy to see by visualing the network in three windows.Network View,Behaviour View and Reaction View.</p>   </span></div>
+.Data exchange,Reaction network visualization.<br/>
+.Automatic parameter fitting of a mathematical model for a desired behavior, according to experiment data or hand drawn curves using evolution algorithm.<br/>
+.Evaluation of the workablility or robustness of a biological reaction network using pca and entropy.<br/>
+</p>
+</span>
+</div>
 <p class="em_text"><p class="intro"> <div class="button_01"> <a href="https://2011.igem.org/Team:USTC-Software/project">Details</a> </div> </p> </p>
-        </div>
+    </div>
+<br/>
+ <h2>Sponsers</h2>
-   <table width="921" height="551" border="0">
+<table width="917" border="0">
-     <tr>
+  <tr>
-       <td width="745" height="547"><table width="739" height="545" border="0">
+    <td width="180"><img src="https://static.igem.org/mediawiki/2011/5/5b/USTC_Software_IF_LOGO_2.jpg"  width="180" /></td>
-<tr>
+    <td width="867">
-  <td width="363" height="81"><h2>Sponsor</h2></td>
+        <table width="724" height="172" border="0">
-  <td width="358"></td>
+          <tr>
+            <td width="227"><img src="https://static.igem.org/mediawiki/2011/1/11/USTC_Software_TAO_LOGO.png"  width="238" height="83"/></td>
+            <td width="234"><img src="https://static.igem.org/mediawiki/2011/d/d3/USTC_Software_sols.png" width="238" height="83"/></td>
+            <td width="249"><img src="https://static.igem.org/mediawiki/2011/e/ef/USTC_Software_ADGE_LOGO.png" width="238" height="83"/></td>
+          </tr>
+          <tr>
+            <td height="86"><img src="https://static.igem.org/mediawiki/2011/1/18/USTC_Software_information.png"  width="238" height="83"/></td>
+            <td><img src="https://static.igem.org/mediawiki/2011/2/25/USTC_Software_chemistry.jpg"  width="238" height="83"/></td>
+            <td><img src="https://static.igem.org/mediawiki/2011/c/cf/USTC_Software_math.jpg"  width="238" height="83"/></td>
+          </tr>
+        </table>
+    </td>
+  </tr>
+</table>
-</tr>
-<tr>
-  <td width="363" height="87">
-   <a href="http://www.ustcif.org"> <img src="https://static.igem.org/mediawiki/2011/b/ba/USTC_Software_IF_LOGO.jpg" width="363" height="90"/></a> </td>
-  <td width="358"><p align="center"><a href="http://www.ustcif.org"><strong>Initiative Foundation, USTC</strong></a></p></td>
-</tr>
-<tr>
-  <td height="87"><img src="https://static.igem.org/mediawiki/2011/1/11/USTC_Software_TAO_LOGO.png" width="363" height="85" /></td>
-  <td><p align="center"><strong>Teaching Affair Office, USTC</strong></p></td>
-</tr>
-<tr>
-  <td height="87"><img src="https://static.igem.org/mediawiki/2011/d/d3/USTC_Software_sols.png" width="363" height="85" /></td>
-  <td><p align="center"><strong>School of Life Sciences, USTC</strong></p></td>
-</tr>
-<tr>
-  <td height="87"><img src="https://static.igem.org/mediawiki/2011/e/ef/USTC_Software_ADGE_LOGO.png" width="363" height="85" /></td>
-  <td><p align="center"><strong>Graduate School, USTC</strong></p></td>
-</tr>
-<tr>
-  <td height="102"><img src="https://static.igem.org/mediawiki/2011/2/25/USTC_Software_chemistry.jpg" width="363" height="85" /></td>
-  <td><p align="center"><strong>School of Chemistry and Materials Science, USTC</strong></p></td>
-</tr>
-</table></td>
-       <td width="166">   <table width="166" height="255" border="0">
-     <tr>
-       <th width="424" height="56" scope="col"><h2>Vistor</h2></th>
-     </tr>
-     <tr>
-       <td height="190">
-        <div id="clustrmaps-widget"></div><script type="text/javascript">var _clustrmaps = {'url' : 'https://2011.igem.org/Team:USTC-Software', 'user' : 930921, 'server' : '4', 'id' : 'clustrmaps-widget', 'version' : 1, 'date' : '2011-10-02', 'lang' : 'zh', 'corners' : 'square' };(function (){ var s = document.createElement('script'); s.type = 'text/javascript'; s.async = true; s.src = 'http://www4.clustrmaps.com/counter/map.js'; var x = document.getElementsByTagName('script')[0]; x.parentNode.insertBefore(s, x);})();</script><noscript><a href="http://www4.clustrmaps.com/user/e30e3469"><img src="http://www4.clustrmaps.com/stats/maps-no_clusters/2011.igem.org-Team-USTC-Software-thumb.jpg" alt="Locations of visitors to this page" /></a></noscript>
-       </td>
+ <br/>
-     </tr>
-   </table></td>
+<br/>
-     </tr>
-   </table>
-   </div>
+<h2>Vistor</h2>
+   <div id="clustrmaps-widget"></div><script type="text/javascript">var _clustrmaps = {'url' : 'https://2011.igem.org/Team:USTC-Software', 'user' : 930921, 'server' : '4', 'id' : 'clustrmaps-widget', 'version' : 1, 'date' : '2011-10-02', 'lang' : 'zh', 'corners' : 'square' };(function (){ var s = document.createElement('script'); s.type = 'text/javascript'; s.async = true; s.src = 'http://www4.clustrmaps.com/counter/map.js'; var x = document.getElementsByTagName('script')[0]; x.parentNode.insertBefore(s, x);})();</script><noscript><a href="http://www4.clustrmaps.com/user/e30e3469"><img src="http://www4.clustrmaps.com/stats/maps-no_clusters/2011.igem.org-Team-USTC-Software-thumb.jpg" alt="Locations of visitors to this page" /></a></noscript>
+</div>
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