Team:SYSU-Software/Project
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</div> | </div> | ||
<ul id="toc-ul"> | <ul id="toc-ul"> | ||
- | <li class="toclevel-1"><a href="#r0"><span class="tocnumber"></span> <span class="toctext"> | + | <li class="toclevel-1"><a href="#r0"><span class="tocnumber"></span> <span class="toctext"> Introduction</span></a></li> |
- | <li class="toclevel-1"><a href="# | + | <li class="toclevel-1"><a href="#r2">Genome Browser</a></li> |
- | <li class="toclevel-1"><a href="# | + | <li class="toclevel-1"><a href="#r3">Biobrick</a></li> |
- | <li class="toclevel-1"><a href="# | + | <li class="toclevel-1"><a href="#r4">Riboswitch</a></li> |
- | <li class="toclevel-1"><a href="# | + | <li class="toclevel-1"><a href="#r5">SiRNA</a></li> |
+ | <li class="toclevel-1"><a href="#r6">Meta Network</a></li> | ||
+ | <li class="toclevel-1"><a href="#r7">Simulator</a></li> | ||
+ | <li class="toclevel-1"><a href="#r8">G-Circle</a></li> | ||
</ul> | </ul> | ||
</td> | </td> | ||
Line 85: | Line 88: | ||
</table> | </table> | ||
<div id="doc-contents"> | <div id="doc-contents"> | ||
- | <h2 id=" | + | <h2><span lang="EN-US" id="r1">Introduction<o:p></o:p></span></h2> |
- | < | + | <p class="MsoNormal"> |
- | <p> | + | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size: |
- | </ | + | 11.0pt;font-family:"Georgia","serif"">Faced with the |
- | <h2 id=" | + | emergency of bio-information in recent years, we are motivated to consider how |
- | < | + | to exploit them and integrate them into biological researches. In order to |
- | <p> | + | design and engineer artificial organisms, Synthetic Biology has much more |
- | </ | + | requirements to the understanding of the information comprehensively as its |
- | <h2 id=" | + | final goal is to assemble and construct the systems under the standard criteria. |
- | < | + | BiArkit, a multifunctional tool box, assists synthetic biology researchers to |
- | <p> | + | further comprehend bio-information from sequences and parts to the whole |
- | </ | + | systems. Besides, it provides medium for users to generate desired information |
- | <h2 id=" | + | in experiments. <o:p></o:p></span></p> |
- | < | + | <h2><span lang="EN-US" id="r2">GenomeBrowser<o:p></o:p></span></h2> |
- | < | + | <p class="MsoNormal"> |
- | </ | + | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size: |
- | <h2 id=" | + | 11.0pt;font-family:"Georgia","serif"">This is the section |
- | < | + | for sequences information. With this browser, researchers can surf for genomes |
- | < | + | from the typical model organisms. Users can locate the interested genes in terms |
- | </ | + | of the input items, including name, product or coordinate. In addition, new |
+ | genomes data will be saved on our website as downloadable contents. <o:p></o:p> | ||
+ | </span></p> | ||
+ | <h2><span lang="EN-US" id="r3">Biobrick<o:p></o:p></span></h2> | ||
+ | <p class="MsoNormal"> | ||
+ | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size: | ||
+ | 11.0pt;font-family:"Georgia","serif"">This is the section | ||
+ | for parts information. It can facilitate researchers to search features and | ||
+ | functions of Biobricks documented in the <i style="mso-bidi-font-style:normal"> | ||
+ | Registry of Standard Biological Parts</i>. All of the relevant operations can be | ||
+ | completed without connecting with the Internet.<o:p></o:p></span></p> | ||
+ | <h2><span lang="EN-US" id="r4">Riboswitch<o:p></o:p></span></h2> | ||
+ | <p class="MsoNormal"> | ||
+ | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size: | ||
+ | 11.0pt;font-family:"Georgia","serif"">This is the section | ||
+ | for generating parts information. It can assist researchers to design the | ||
+ | sequences and structures of potential riboswitches according to their inputs and | ||
+ | choices of aptamers. Both of the up-regulation and down-regulation riboswiches | ||
+ | can be provided by this kit. </span><b style="mso-bidi-font-weight:normal"> | ||
+ | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size:11.0pt"><o:p></o:p> | ||
+ | </span></b></p> | ||
+ | <h2><span lang="EN-US" id="r5">SiRNA<o:p></o:p></span></h2> | ||
+ | <p class="MsoNormal"> | ||
+ | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size: | ||
+ | 11.0pt;font-family:"Georgia","serif"">This is the section | ||
+ | for generating parts information. It can design another regulator in engineering | ||
+ | biological systems – siRNA. According to the input sequences, it can figure out | ||
+ | the potential siRNA automatically.<span style="mso-spacerun:yes"> | ||
+ | </span><o:p></o:p></span></p> | ||
+ | <h2><span lang="EN-US" id="r6">MetaNewtwork<o:p></o:p></span></h2> | ||
+ | <p class="MsoNormal"> | ||
+ | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size: | ||
+ | 11.0pt;font-family:"Georgia","serif"">This is the section | ||
+ | for system information. Given the friendly interface, researchers can explore | ||
+ | and acquire their interested gene’s relevant pathways and networks in one map. | ||
+ | Users can even drag every graphic element in the maps to check the information | ||
+ | conveniently and effectively.<o:p></o:p></span></p> | ||
+ | <h2><span lang="EN-US" id="r7">Simulator<o:p></o:p></span></h2> | ||
+ | <p class="MsoNormal"> | ||
+ | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size: | ||
+ | 11.0pt;font-family:"Georgia","serif"">This is the section | ||
+ | for generating system information. Based on the reconstruction of genome-scale | ||
+ | models, researcher can use this kit to edit the existent models according to | ||
+ | their needs. Then, they can choose different combination of analysis to predict | ||
+ | effect from a intended loss-of –function mutation, find necessary and basic | ||
+ | genes maintaining the whole system, predict phenotypic behavior under the given | ||
+ | environmental conditions and interpret the coupled reaction activities. <o:p></o:p> | ||
+ | </span></p> | ||
+ | <h2><span lang="EN-US" id="r8">G-Circle<o:p></o:p></span></h2> | ||
+ | <p class="MsoNormal"> | ||
+ | <span lang="EN-US" style="font-size:12.0pt;mso-bidi-font-size: | ||
+ | 11.0pt;font-family:"Georgia","serif"">This is the section | ||
+ | for sequence information. It can illustrate the given genome and the expression | ||
+ | level of genes within it under different environment in one graph. In addition, | ||
+ | we have developed it as one app and integrated it into | ||
+ | <i style="mso-bidi-font-style: | ||
+ | normal">Clotho</i>.<span style="mso-spacerun:yes"> </span><o:p></o:p> | ||
+ | </span></p> | ||
</div> | </div> | ||
</div><!--end entry--> | </div><!--end entry--> |
Revision as of 12:00, 24 September 2012
![](http://preview.zcool.com.cn/upimg/allimg/070622/0304268.gif)
![]( https://static.igem.org/mediawiki/2012/6/6d/Little-boy.png)
Our Project
Contents |
Introduction
Faced with the
emergency of bio-information in recent years, we are motivated to consider how
to exploit them and integrate them into biological researches. In order to
design and engineer artificial organisms, Synthetic Biology has much more
requirements to the understanding of the information comprehensively as its
final goal is to assemble and construct the systems under the standard criteria.
BiArkit, a multifunctional tool box, assists synthetic biology researchers to
further comprehend bio-information from sequences and parts to the whole
systems. Besides, it provides medium for users to generate desired information
in experiments.
GenomeBrowser
This is the section
for sequences information. With this browser, researchers can surf for genomes
from the typical model organisms. Users can locate the interested genes in terms
of the input items, including name, product or coordinate. In addition, new
genomes data will be saved on our website as downloadable contents.
Biobrick
This is the section
for parts information. It can facilitate researchers to search features and
functions of Biobricks documented in the
Registry of Standard Biological Parts. All of the relevant operations can be
completed without connecting with the Internet.
Riboswitch
This is the section
for generating parts information. It can assist researchers to design the
sequences and structures of potential riboswitches according to their inputs and
choices of aptamers. Both of the up-regulation and down-regulation riboswiches
can be provided by this kit.
SiRNA
This is the section
for generating parts information. It can design another regulator in engineering
biological systems – siRNA. According to the input sequences, it can figure out
the potential siRNA automatically.
MetaNewtwork
This is the section
for system information. Given the friendly interface, researchers can explore
and acquire their interested gene’s relevant pathways and networks in one map.
Users can even drag every graphic element in the maps to check the information
conveniently and effectively.
Simulator
This is the section
for generating system information. Based on the reconstruction of genome-scale
models, researcher can use this kit to edit the existent models according to
their needs. Then, they can choose different combination of analysis to predict
effect from a intended loss-of –function mutation, find necessary and basic
genes maintaining the whole system, predict phenotypic behavior under the given
environmental conditions and interpret the coupled reaction activities.
G-Circle
This is the section
for sequence information. It can illustrate the given genome and the expression
level of genes within it under different environment in one graph. In addition,
we have developed it as one app and integrated it into
Clotho.