Team:SJTU-software/Medals
Medal Criteria
Bronze
Registration and Jamboree Attendance
We have registered our team early in summer, and spent our summer vacation, along with weekends in September and Octorber, to finish off our project, human practice, etc., and we are also planning to participate in the Giant Jamboree, presenting our project and enjoying the celebration of knowledge.
Competition Deliverables
We have built up our own Wiki, clarifying and specifying all the works we’ve done. We have designed our own poster, and prepared for the presentation that are both going to be presented at the Jamboree. Also, We have finished and submitted our judging form in time.
Attributions
We had distributed a clear Attribution page, and have met all deliverable requirements.
Project Inspiration and Description
PHOSYME is an integrated plant Biobricks and Plant metabolite database, with some corresponding tools specifically for plant synthetic biology.For more details, please check out our Description page.
Contribution
When communicating with the iGEM teams who intend to start project using plant chassis, we found that there is need for a integrated platform of plant informations. They also told us that the iGEM's part collection for plant had not been updated. Therefore, we developed Phosyme. This platform integrated the plant metabolite information from PMN, NCBI, TARI and KEGG database. It also includes the updated iGEM part list and the plasmid used in plant chassis. Meanwhile, we added some tools for prediction, viusulization and biological metabolic network modification. We still composed a game to arouses people's interest about plant synthetic biology.
More details can be found here: Contribution.
Silver
Validated Contribution
We have invited our teachers and classmates in biology lab to use our database and tools. By this way, they found it’s easier to find a key reaction or key gene of plant more efficiently. Besides, our cooperation team tested our tools: prediction, visualization and biological metabolic network modification. Both domo video and our web prove that our design is validated.Click here:Contribution.
Collaboration
We have collaborated with SJTU-biox-shanghai team, sharing the ideas of database about plant synthesis biology and exchanged views on the problems and solutions we have encountered. We also attended team meeting in Shanghai, communicating with Tongji-software and UESTC-software team about some specific details. What’s more, USTC-software ran our β test and gave us some feedbacks.Click here: Collaborations.
Human Practices
Our human practices focus on what kind of help our project can provide for scholars with a professional background in plant research or researchers who want to conduct plant research. At the same time, we hope to promote synthetic biology and plant related knowledge to more students and community residents who have no previous knowledge of biology.Click here: Human Practices.
Gold
Integrated Human Practices
Integrated Human Practices work with Phosyme and interactively improve our project. Through effective communication with academic researchers and other iGEM teams, we continue to improve on project topics, project content, and user experience.For more details, please check out our Integrated page.
Improve
Phosyme improved based on feedback from last year's Metlab project, adding 3D visualization and format conversion in addition to 2D visualization. For more details, please check out our Improve page.
Model
The clever model design makes our software PHOSYME a more powerful tool for plant synthetic biology. Our modeling team use many fancy technologies, such as deep learning, graph theory to increase the performance of our Enzyme Prediction Function and SBML Online Modification Function. For more details, please check out our Model page.
Demonstrate
Our project is helpful and it does works. Using case study, we shows our work under realistic conditions. For more details, please check out our Demonstrate page.
Presented by
SJTU - software
