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Team:UESTC
From 2013.igem.org
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Hi! We are 2013 iGEM Competition Software Team UESTC
(University of Electronic Science and Technology of China)
Blueprint
No matter who you are, a scientist proficient in synthetic biology or a greenhand who only cares about output, Blueprint is your best choice. Two major parts are provided: Interactive part & Automatic part. In the first part, you are free to get what you want linking any parts we provide. But you have to make sense, of course. In the second part, the only thing you need to do is to determine the inducer and the output. Then, you can sit back and wait for our software to provide you with the optimized circuit. Wow!
Transpeeder
The satisfying amino acid or nucleic acid sequences that the user submitted will be compared to the chosen CD sequences by ClustalW, the sequence which has highest similarity with SD sequences are defined as the slow-translating sequence, on the contrary, the one which has lowest similarity with SD sequences are defined as the fast-translating sequence.
iBricks
iBricks is an iphone game concerning synthetic biology. In this game, what you need to do is to synthesize protein to compound a cell. You are provided with several basic parts to synthesize protein. Once you accomplish combining these parts into a circuit, you will enter into transcription process, during which phage will continuously attack your circuit. To protect it, you can press on these phages to kill them. You can also utilize several tools to eliminate phages with higher efficiency. After successfully synthesizing the protein, you can get new parts that increase the possibility of successfully synthesizing proteins. With several synthesized proteins, you can accomplish the goal of synthesizing a complete cell.
Hello
This is the voice from UESTC, Chengdu, China. We are proud to announce that we have achieved two first here: It‘s the first time that our university take part in iGEM. What’s more, we are also the first team from the southwest region of China participating in the software competition. Wow! We come from University of electronic science and technology of China, which is renowned as China's cradle for the national electronic industry. Also, our universty is situated at Chengdu, the city of over a thousand-year-old cultural history in 'the land of abundance' What's more, we are from the hometown of PANDAs!
Student Members
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Hi, I am the leader of our team and the director of iBricks. Being as a junior student majoring in Biomedical Engineering, I have great interest in data mining in social network and programming software on mobile devices. I did all the scoring algorithm of Blueprint in our team.
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Hi, I am a junior student from school of life science and technology, majoring in Biomedical Engineering and minoring in English. For my great organizational capability, I am the director of Blueprint. I am in charge of the statistics of parts in the registry and database established for Blueprint.
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Hi, I am a junior student majoring in Biomedical Engineering. I am fond of photography and sports, especially basketball. I did part of parts statistics and the realization of Transpeeder by Java.
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Hi, I am a junior student majoring in Biomedical Engineering with strong learning ability. I like running, reading and traveling around. I did part of parts statistics and kept the minutes of our discussion in our way to MIT. My life motto is nothing is impossible to a willing heart.
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Hi, I am a junior student majoring in Biomedical Engineering with great interest in programming. I chose programming on IOS system as the main attack. iBricks is my first experience in video games. Programming Blueprint on iphone is relatively easy to me. My maxim is where there is a will, there is a way.
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Hi, I am a sophomore majoring in Theoretical Physics from school of physical electronics. I am regarded as a hard-working student with easy-going personality. Making great videos is what I am always pursuing. Besides this, I also participated in parts statistics work for our projects.
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Hi, I am a freshman from School of Information and Software Engineering, also a fantastic guy with passion and great imagination. Wiki is rather a great challenge for me, but I really enjoy this process, learning and progressing. The realization of Blueprint is also my work. I expected to show you a grand map of parts distributed in 2013 by iGEM.
Advisors
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Hi, I am a graduate student majoring in biochemistry and molecular biology, responsible for giving advice on some of the arts designing work in our team, including T-shirts and wiki design.
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Hi, I am a doctoral student in CEFG.Current Research interests: codon usage, bioinformatic database. I did algorithm of visualization of Blueprint and Transpeeder.
Instructors
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Dr Jian Huang is a professor in the University of Electronic Science and Technology of China. He holds M.D. degree with experience in medicine, basic immunology and bioinformatics from the West China University of Medical Sciences and the Kyoto University. His studies focus on the molecular aspects of antigens, antibodies and peptide aptamers. His work has resulted in the development of a few immunological databases and web programs which have become to be important tools and data resources for both computationalbiologists and experimental biologists, especially those using phage display technology.
For more information, please visit his homepage http://immunet.cn/hlab
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Dr Lin is an associate professor of the Center of Bioinformatics in the School of Life Science and Technology interested in proteomics bioinformatics and system biology.
For more information, please visit http://lin.uestc.edu.cn/
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Dr. Xianlong Wang is an associate professor of computational chemistry and biology at the Center of Bioinformatics, the University of Electronic Science and Technology of China. He is interested in modelling both small molecules and biological macromolecules and developing new algorithms.
Contact us
Diaries in May
Room 252 West Main Building Friday May 3, 2013
The university tryouts which has lasted for nearly a month ended, and the name list of the selected members of the school team has been determined. Launching ceremony of the iGEM event this year was staged today and the people present are Dezhong Yao, Dean of School of Life; Qiong Zhang, vice secretary of the Communist Party Committee of School of Life; Jian Huang, supervisor of the software team; Xuelian Zheng, supervisor of the Wetware team and all members of the UESTC iGEM team. The leaders conveyed the great attention and expectations from the university.
Room 341 Yifu Building Saturday May 4, 2013
It is the first meeting that was convened by the software team. Apart from the team members, the people who attended were the supervisors and the advisors. We discussed the schedule and main tasks at this stage and the team leader emphasized the discipline required during the preparations for iGEM. In May, we plan to do massive reading of academic papers on synthetic biology and each member is required to share the ideas that he or she has got from reading these papers, and then the team will discuss the ideas and make a decision on a general direction of our project. In June, the team is to do the intensive reading on the major direction and conceive frame of the project and assign tasks to each team member. In July and August, all members are to dedicate their time to the work distributed to him or her. In late August and September, the project will be under optimizing and improving, and the team will make preparations for the presentation to be held in Hong Kong.
Diaries in June
Room 341 Yifu Building Sunday June 2, 2013
We continued to discuss some software we’ve collected, including Plasmid Automatic Design Software. And from its idea and approaches we can think about how to combine our game and the concept of synthetic biology. Other pieces of software we discussed are BioBricks jtools, which is a small set of utilities; Biomortar, EvoGents, focusing on how to make gene circuits stable based on genetic algorithms; and Agent Based System. Then, we determined agenda for the next meeting. In addition, the coach told us that Gil-- MIT judger -- would come to communicate with us in our college.
Room 341 Yifu Building Tuesday June 4, 2013
Software we discussed are: Lachesis, a visualization tool based on parametric models. We talked about a literature which introduced how to choose a route from massive biobrick parts by scoring and the feasibility of the parts in the database. Biodesign is a program which automatically connects the selected parts, but it only supports IOS Systems. ABCD which was made by the USTC in 2009 can automatically generate the designed circuit. We also discussed Gil’s trip and our presentations.
