Difference between revisions of "Template:SYSU-Software/statics/html/Projects/Description.html"
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The complexity of genetic circuits has made it difficult for synthetic biologists to design the artificial | The complexity of genetic circuits has made it difficult for synthetic biologists to design the artificial | ||
| − | biological systems. In our project, we developed <span class=" | + | biological systems. In our project, we developed <span class="bold">CO-RAD</span>, a <span class="bold">Collaborative |
| − | Optimization</span> platform with multiple functions including <span class=" | + | Optimization</span> platform with multiple functions including <span class="bold">Recommendation, |
Analysis and Design</span>. With the help of CO-RAD, users can design genetic circuits easily and cooperate | Analysis and Design</span>. With the help of CO-RAD, users can design genetic circuits easily and cooperate | ||
| − | with remote partners <span class=" | + | with remote partners <span class="bold">in real time</span>. |
| − | More importantly, the <span class=" | + | More importantly, the <span class="bold">search & recommendation system in CO-RAD</span> were developed to |
| − | inspire users with some previous projects and optimize their design <span class=" | + | inspire users with some previous projects and optimize their design <span class="bold">with evolutionary |
| − | algorithm</span>. Moreover, <span class=" | + | algorithm</span>. Moreover, <span class="bold"> <a href="javascript:void(0)" goto="Simulation-Circuits"> a |
| + | novel numerical simulation algorithm </a> </span> | ||
for circuit）applied in CO-RAD was developed to predict the expression level of genetic circuits in no time. | for circuit）applied in CO-RAD was developed to predict the expression level of genetic circuits in no time. | ||
| − | Through In addition, we incorporated self-designed <span class=" | + | Through In addition, we incorporated self-designed <span class="bold"> <a href="javascript:void(0)" goto="Validation"> |
| + | wet-lab validation </a> </span>into | ||
our project to validate the new results designed by our CO-RAD platform. In conclusion, by assisting in | our project to validate the new results designed by our CO-RAD platform. In conclusion, by assisting in | ||
collaboration and inspiration, CO-RAD makes complex biological systems accessible to researchers who want | collaboration and inspiration, CO-RAD makes complex biological systems accessible to researchers who want | ||
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experience, it is very difficult for individuals to design a viable circuit alone.This raises the demand of | experience, it is very difficult for individuals to design a viable circuit alone.This raises the demand of | ||
effective collaboration methods. It would be better if the biologists can work face to face, in which way they | effective collaboration methods. It would be better if the biologists can work face to face, in which way they | ||
| − | can exchange ideas with absolute ease. However, in many cases we | + | can exchange ideas with absolute ease. However, in many cases we can't even make sure everyone works on the |
same continent, let alone in the same room, so we need appropriate ways for tele-cooperation. Sadly, | same continent, let alone in the same room, so we need appropriate ways for tele-cooperation. Sadly, | ||
| − | traditional online tools | + | traditional online tools don't satisfy biologists' needs. For example, genetic circuits and experimental |
| − | protocols cannot be precisely represented via Google Doc. Local designing software such as SBOLDesigner | + | protocols cannot be precisely represented via Google Doc. Local designing software such as SBOLDesigner don't |
let scientists edit online cooperatively, which brings down efficiency a lot. Besides, creative ideas and | let scientists edit online cooperatively, which brings down efficiency a lot. Besides, creative ideas and | ||
valuable suggestions are also important in collaboration, which will have a great influence in the final result | valuable suggestions are also important in collaboration, which will have a great influence in the final result | ||
| − | of | + | of users' co-design. |
</div> | </div> | ||
| − | <img src=" | + | <img src="https://static.igem.org/mediawiki/2018/0/06/T--SYSU-Software--coEdit.png" /> |
<div class="content"> | <div class="content"> | ||
Therefore, we're here to solve the following problems: | Therefore, we're here to solve the following problems: | ||
| − | < | + | <ol> |
| − | + | <li> | |
| − | + | How to make tele-cooperation as convenient as face-to-face collaboration. | |
| − | + | </li> | |
| + | <li> | ||
| + | How to encourage users to think of and share more creative ideas while cooperating. | ||
| + | </li> | ||
| + | </ol> | ||
</div> | </div> | ||
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<div class="content"> | <div class="content"> | ||
| − | <div class="ui header"> | + | <div class="ui header">Synchronization sketchpad</div> |
</div> | </div> | ||
<div class="ui bottom attached button detail-btn" data-id="2">View Detail</div> | <div class="ui bottom attached button detail-btn" data-id="2">View Detail</div> | ||
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</div> | </div> | ||
<div class="ui modal" id="modal-2"> | <div class="ui modal" id="modal-2"> | ||
| − | <div class="header"> | + | <div class="header">Synchronization sketchpad</div> |
<div class="image content"> | <div class="image content"> | ||
<div class="ui medium image"> | <div class="ui medium image"> | ||
Revision as of 15:23, 17 October 2018
Project
Welcome to CO-RAD!
The complexity of genetic circuits has made it difficult for synthetic biologists to design the artificial
biological systems. In our project, we developed CO-RAD, a Collaborative
Optimization platform with multiple functions including Recommendation,
Analysis and Design. With the help of CO-RAD, users can design genetic circuits easily and cooperate
with remote partners in real time.
More importantly, the search & recommendation system in CO-RAD were developed to
inspire users with some previous projects and optimize their design with evolutionary
algorithm. Moreover, <a href="javascript:void(0)" goto="Simulation-Circuits"> a
novel numerical simulation algorithm </a>
for circuit）applied in CO-RAD was developed to predict the expression level of genetic circuits in no time.
Through In addition, we incorporated self-designed <a href="javascript:void(0)" goto="Validation">
wet-lab validation </a> into
our project to validate the new results designed by our CO-RAD platform. In conclusion, by assisting in
collaboration and inspiration, CO-RAD makes complex biological systems accessible to researchers who want
rapid, intuitive, and high-quality
accomplish their designs.
Description
Groupwork is the bread and butter of biological system & circuit design, due to the complexity of this research
field. In consequence of the complexity of biological systems, genetic circuit design and the limited personal
experience, it is very difficult for individuals to design a viable circuit alone.This raises the demand of
effective collaboration methods. It would be better if the biologists can work face to face, in which way they
can exchange ideas with absolute ease. However, in many cases we can't even make sure everyone works on the
same continent, let alone in the same room, so we need appropriate ways for tele-cooperation. Sadly,
traditional online tools don't satisfy biologists' needs. For example, genetic circuits and experimental
protocols cannot be precisely represented via Google Doc. Local designing software such as SBOLDesigner don't
let scientists edit online cooperatively, which brings down efficiency a lot. Besides, creative ideas and
valuable suggestions are also important in collaboration, which will have a great influence in the final result
of users' co-design.
<img src="" />
Therefore, we're here to solve the following problems:
- How to make tele-cooperation as convenient as face-to-face collaboration.
- How to encourage users to think of and share more creative ideas while cooperating.
Solution
Help users come up with more creative ideas
<img src="" />
Search & recommendaion
<img src="" />
Analysis & simulation
<img src="" />
Guide the design
Search & recommendaion
<img src="
Given the experience of previous achievements provides valuable inspiration while cooperating, we
developed this function to help users quickly find the project they need.
Analysis & simulation
<img src="
Deeper understanding of the circuit design can help users make more hypothetical opinions. Our software
analyzes circuits and gives values for CG and CAI, and builds mathematical simulation models to predict
expression levels.
Guide the design
<img src="
Through an algorithm that simulates evolution, users can get optimal kinetic parameters for circuits,
which can assist users in modifying their circuits to reach the expected behavior.
Solve the inconvenience of remote collaboration and communication
<img src="" />
Real-time collaboration
<img src="" />
Synchronization sketchpad
<img src="" />
SBOL support
Real-time collaboration
<img src="
A real-time genetic circuit design platform where multiple users can edit one file at the same time,
just like (and even better than!) working on the same computer.
Synchronization sketchpad
<img src="
A tool that simulates pen and paper, users can express their opinions by labeling or drawing during the
communication process.
SBOL support
<img src="
Our system is compatible with SBOL, the most common data format in the field of synthetic biology,
which means circuits edited on other software can be quickly imported into our software without
re-editing.
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