Template:SYSU-Software/statics/html/Projects/Design.html

Projects

Design

Overview

       CO-RAD is not a question-and-answer community website, we offer a new collaboration method for synthetic
       biologists. We believe that face-to-face communication is the most efficient way to collaborate, therefore, we
       want users to be as efficient as face-to-face communication with our newly designed real-time collaborative
       designer and shared sketchpad. Additionally, our vast database and mathematical algorithms provide users with
       new perspectives and thinking to help users come up with more valuable ideas when collaborating to improve the
       quality of collaboration.

       Good collaboration = convenient and quick way to collaborate + valuable communication content

   <img src="TODO:" />

New Ways of Collaboation:Real-time collaboration like face to face

Real-time Collaborative Designer

       There are various kinds of online collaboration software, such as Google Docs, which greatly improve the
       efficiency of teamwork. To this end, we hope to bring this effective way of collaboration into the field of
       synthetic biology. Unlike other design software that can only be used locally, the online design platform in
       CO-RAD can invite anyone to join, and with the permission, everyone's changes can be displayed on other
       people's computers in real time. Users can add any new components to the circuits on this platform, edit the
       relationship between the various devices, and even write the protocol used in the experiment to make their
       design more complete. At the same time, we also support historical version backtracking, and each change can be
       withdrawn.

   <img src="TODO:软件截图" />

Shared Sketchpad

       In the process of face-to-face communication, it is very common to use pen and paper to express their ideas. In
       order to improve the efficiency of remote collaboration, we have developed the function of sharing sketchpad.
       With the circuit picture as the background, users can draw arbitrary content to express their own ideas, which
       will be displayed in real time on other users' computers.

   <img src="TODO:软件截图" />

SBOL Support

       Our software is not a closed platform. In order to improve software compatibility, we support the import and
       export of SBOL files. This allows circuits edited on other software to be quickly imported into our software
       without having to re-edit.

   <img src="../../images/Pr-De-4.png" />

Help Users Come Up With More Valuable Ideas

       Good collaboration requires good advice, and a good proposal cannot be separated from a summary of past
       successful experience, a deep understanding of existing designs, and sometimes computer assistance. To this
       end, we have developed several functions, hoping to enlighten users' inspiration and open up users' thinking.

Search

       Every year, hundreds of teams participate in the iGEM competition, and a large number of synthetic biology
       literatures are published. By understanding these successful projects, users can improve their own experimental
       designs or provide more reliable advice for the designs of others. We have collected a lot of data stored in
       our database, including project from previous years' iGEM teams and well-known journals. Users can search for
       interesting projects by keywords and get inspiration for designing or optimizing their own designs.

   <img src="../../images/Pr-De-5.png" />

Recommendation

       When a user builds a circuit on the design platform, our software will automatically recommend a project with
       similar circuits based on the user's circuit design.

   <img src="TODO:" />

Analysis

       Deeper understanding of the circuit design can help users put forward more constructive comments. CO-RAD can
       calculate two common values, the CG and CAI values of components, to assist the user in deciding whether to
       modify or optimize the components of the circuit.

   <img src="../../images/Pr-De-6.png" />

Simulation

       CO-RAD can analyze the circuit designed by a user, and build corresponding mathematical models to provide a
       reference for him or her by simulating the expression of the product.

   <img src="TODO:" />

Guide the Design

       We use an algorithm that simulates the evolution of biological orientation to assist the user in modifying his
       or her own circuit designs. After the user determines the desired expression level, the algorithm simulates the
       process of reproduction, elimination, mutation, etc., and iteratively obtains the optimal component dynamics
       parameters. These parameters can help the user to modify or optimize his or her circuit parts

   <img src="TODO:" />