Team:ZJU-China/Solution

From 2014.igem.org

(Difference between revisions)
 
(11 intermediate revisions not shown)
Line 11: Line 11:
     <!--Put content here -->
     <!--Put content here -->
     <p>After reading the Circuit design and Working process of GeneSocket, you may understand how GeneSocket complete its aim: Circuit construction on chromosome. But is its ability only limited in constructing circuit like this? </p>
     <p>After reading the Circuit design and Working process of GeneSocket, you may understand how GeneSocket complete its aim: Circuit construction on chromosome. But is its ability only limited in constructing circuit like this? </p>
-
<img src="https://static.igem.org/mediawiki/2014/c/c3/ZJU_Simple_circuit.png" />
+
<p style="text-align:center"><img src="https://static.igem.org/mediawiki/2014/c/c3/ZJU_Simple_circuit.png" align ="left" width="350" style="float:none;margin:0 auto"/></p>
 +
<br />
<p><big><big><big>Of course not!</big></big></big></P>
<p><big><big><big>Of course not!</big></big></big></P>
-
<p>We believe GeneSocket has the potential to construct innumerable circuits. But during the construction process, different circuit should have different strategies. It’s not that complicate as it sounds, we even build two standard parts (BBa_K1433009 & BBa_K1433010) to help you face most cases. Our software tools GS-BOX is also compatible with the mode we discuss bellow. Still, we can’t say all situation are included in this discussion, but base on our basic design and principle of GeneSocket, you can come up with best strategies by your own creativity.</p>
+
<p>We believe GeneSocket has the potential to construct innumerable circuits. But during the construction process, different circuit should have different strategies. It’s not that complicate as it sounds, we even build two standard parts (<a href="http://parts.igem.org/Part:BBa_K1433009">BBa_K1433009</a> & <a href="http://parts.igem.org/Part:BBa_K1433010">BBa_K1433010</a>) to help you face most cases. Our software tools GS-BOX is also compatible with the mode we discuss bellow. Still, we can’t say all situation are included in this discussion, but base on our basic design and principle of GeneSocket, you can come up with best strategies by your own creativity.</p>
-
<p><b><big>Basic principle of GeneSocket</big></b>
+
<p><b><big>Basic principle of GeneSocket</big></b></p>
-
P1. Inserted parts must link with standard parts.(why?)<br />
+
<p>P1. Inserted parts must link with standard parts.<a href="https://2014.igem.org/Team:ZJU-China/Solution">(why?)</a><br /></p>
-
P2. The direct consequence of recombination must be the expression of Int.</p>
+
<p>P2. The direct consequence of recombination must be the expression of Int.</p>
<p>Based on this two principles, let’s discuss three insertion modes. This three modes can combine most regular circuit thus answer lots of question of construction!</p>
<p>Based on this two principles, let’s discuss three insertion modes. This three modes can combine most regular circuit thus answer lots of question of construction!</p>
-
 
+
<table style="width:100%"><tr><td>
<p><b><big>MODE 1 Simple parts</big></b><br />
<p><b><big>MODE 1 Simple parts</big></b><br />
-
If we just want to insert a simple part like BBa_E0040. We can link it to BBa_k1433009, who just added a inverted biterminator unit to guarantee the next recombination happen.
+
If we just want to insert a simple part like BBa_E0040. We can link it to BBa_k1433009, who just added a inverted biterminator unit to guarantee the next recombination happen.</p></td>
-
<img src="https://static.igem.org/mediawiki/2014/5/51/Gfpmode1.jpg"/></p>
+
<td>
 +
<img src="https://static.igem.org/mediawiki/2014/5/51/Gfpmode1.jpg"/ align ="right" width="350" >
 +
</td>
 +
</tr>
 +
</table>
 +
<br />
 +
<br />
 +
<table style="width:100%"><tr><td>
<p><b><big>MODE 2 promoter choice</big></b><br />
<p><b><big>MODE 2 promoter choice</big></b><br />
-
The main propose of promoter BBa_J23110 in our socket is not to promote insertion parts but to guarantee P2 happen. For your own circuit, you may want to use more abundant promoters. So we reserved a homology region in the front of BBa_J23110. If you choose to use your own promoter or have other special design that don’t compatible with socket promoter, you can just choose this region as Left region of insertion fragments.
+
The main propose of promoter BBa_J23110 in our socket is not to promote insertion parts but to guarantee P2 happen. For your own circuit, you may want to use more abundant promoters. So we reserved a homology region in the front of BBa_J23110. If you choose to use your own promoter or have other special design that don’t compatible with socket promoter, you can just choose this region as Left region of insertion fragments.</p></td>
-
<img src="https://static.igem.org/mediawiki/2014/c/cf/ZJU_tool_ch2.jpg"/>
+
<td><img src="https://static.igem.org/mediawiki/2014/c/cf/ZJU_tool_ch2.jpg"/ align ="right" width="350">
-
</p>
+
</td>
-
<p><b><big>MODE 3 terminator</big></b><br />
+
</tr>
 +
</table><br /><br /><br />
 +
<table style="width:100%"><tr><td><p><b><big>MODE 3 terminator</big></b><br />
If the inserted circuit contains a terminator, it will terminate the downstream expression of socket. So you must link the circuit with a new part, BBa_k1433010. It contains a BBa_J23110 in itself thus guarantee P2 happen.
If the inserted circuit contains a terminator, it will terminate the downstream expression of socket. So you must link the circuit with a new part, BBa_k1433010. It contains a BBa_J23110 in itself thus guarantee P2 happen.
-
<img src="https://static.igem.org/mediawiki/2014/e/e1/ZJU_Gfpmode3.jpg"/>
 
</p>
</p>
<p>With the methods that we have used above, we can solve most problems when we want to insert a gene-circuit into the chromosome. But sometimes the situation may be more complex. We cannot list all of the situations for you, but we have given you the tool and the idea to solve a new problem. Join the designers’ team and enjoy it!
<p>With the methods that we have used above, we can solve most problems when we want to insert a gene-circuit into the chromosome. But sometimes the situation may be more complex. We cannot list all of the situations for you, but we have given you the tool and the idea to solve a new problem. Join the designers’ team and enjoy it!
</p>
</p>
 +
<p>LAST BUT NOT LEAST, our software has considered all this three modes and will give answer respectively! So for most circuit constructions, using our GeneSocket and GS-BOX can be almost 100% automatic. That's also our main purpose: To make circuit construction simple!</p>
 +
</td>
 +
<td><img src="https://static.igem.org/mediawiki/2014/e/e1/ZJU_Gfpmode3.jpg"/ align ="right" width="350"></td>
 +
</tr>
 +
</table>
<!--main content -->
<!--main content -->
-
 
+
<table>
 +
    <tr>
 +
        <td><img  src="https://static.igem.org/mediawiki/2014/4/47/ZJU_left_arow.png"> </img></td><td> <a href="https://2014.igem.org/Team:ZJU-China/Design">Previous: Circuit Design</a></td>
 +
        <td width=600px></td>
 +
        <td><a href="https://2014.igem.org/Team:ZJU-China/Modeling">Next: Modeling</a> </td><td><img  src="https://static.igem.org/mediawiki/2014/1/19/ZJU_right_arow.png" > </img> </td>
 +
    </tr>
 +
</table>
</div>
</div>
</div>
</div>
</html>
</html>

Latest revision as of 03:35, 18 October 2014

Team SponsorContact us

Zhejiang University ZJU International Education Fundation College of Life Sciences ZJU School of Medicine Zhejiang University

College of Agriculture & Biotechnology ZJU Faculty of Science Zhejiang University Undergraduate School of ZJU Department of Polymer Sciencce and Engneering Zhejiang University

International Relations Zhejiang University Vazyme Nanking ™ Co.

 Team Forum(BBS): ZJU-China 2014 Team Forum on www.zjubiolab.zju.edu.cn
Post Address: Biolab Center Room 413, ZJU Zijin'gang Campus,
Yuhang Tang Road No.866, Hangzhou, Zhejiang
Powered by . Zhejiang University. Email Address: zjuchina2014 @ 163.com

 

After reading the Circuit design and Working process of GeneSocket, you may understand how GeneSocket complete its aim: Circuit construction on chromosome. But is its ability only limited in constructing circuit like this?


Of course not!

We believe GeneSocket has the potential to construct innumerable circuits. But during the construction process, different circuit should have different strategies. It’s not that complicate as it sounds, we even build two standard parts (BBa_K1433009 & BBa_K1433010) to help you face most cases. Our software tools GS-BOX is also compatible with the mode we discuss bellow. Still, we can’t say all situation are included in this discussion, but base on our basic design and principle of GeneSocket, you can come up with best strategies by your own creativity.

Basic principle of GeneSocket

P1. Inserted parts must link with standard parts.(why?)

P2. The direct consequence of recombination must be the expression of Int.

Based on this two principles, let’s discuss three insertion modes. This three modes can combine most regular circuit thus answer lots of question of construction!

MODE 1 Simple parts
If we just want to insert a simple part like BBa_E0040. We can link it to BBa_k1433009, who just added a inverted biterminator unit to guarantee the next recombination happen.


MODE 2 promoter choice
The main propose of promoter BBa_J23110 in our socket is not to promote insertion parts but to guarantee P2 happen. For your own circuit, you may want to use more abundant promoters. So we reserved a homology region in the front of BBa_J23110. If you choose to use your own promoter or have other special design that don’t compatible with socket promoter, you can just choose this region as Left region of insertion fragments.



MODE 3 terminator
If the inserted circuit contains a terminator, it will terminate the downstream expression of socket. So you must link the circuit with a new part, BBa_k1433010. It contains a BBa_J23110 in itself thus guarantee P2 happen.

With the methods that we have used above, we can solve most problems when we want to insert a gene-circuit into the chromosome. But sometimes the situation may be more complex. We cannot list all of the situations for you, but we have given you the tool and the idea to solve a new problem. Join the designers’ team and enjoy it!

LAST BUT NOT LEAST, our software has considered all this three modes and will give answer respectively! So for most circuit constructions, using our GeneSocket and GS-BOX can be almost 100% automatic. That's also our main purpose: To make circuit construction simple!
Previous: Circuit Design Next: Modeling

Retrieved from "http://2014.igem.org/Team:ZJU-China/Solution"