Team:Shenzhen BGIC 0101/Team

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<h1>Team</h1>
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<p><b>Shenzhen_BGIC_0101 is a special consortium named after a city and a academy. Team members are not from one school, but six. In their 3rd or 4th year in university, some undergraduate students came to Shenzhen_BGIC_0101 and joined a co-cultured program called Innovation Classes on Genomics, in BGI College. After lectures introducing synthetic biology and iGEM given by our instructor K2, students from five schools, including HUST, SCU, SCUT, UESTC, SCNU, SEU, have decided to set up a united team for iGEM 2013.
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<h1>Consortium</h1>
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Students from five different universities have contributed to this project.</p><p>including:<br/>
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<p>Shenzhen_BGIC_0101 is a union team:<br/>
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- Huazhong University of Science and Technology, China<br/>
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6 universities<br/>
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- Sichuan University, China<br/>
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– UCAS, SCUT, UESTC, SCNU, SCU and HUST<br/>
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- South China University of Technology, China<br/>
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9 members<br/>
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- University of Electronic Science and Technology of China, China<br/>
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– 2 postgraduates and 7 undergraduates</br>
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- South China Normal University, China<br/></b></p><br/>
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– They are all co-culture students between BGI college and their home universities.</br>
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<h1 class="team">Undergraduates</h1>
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<h1 class="team">Members</h1>
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<h2>Yuxiang Li</h2>
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<h2>Postgraduate</h2>
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<h3>Yuxiang Li</h3>
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<p>Yuxiang Li is a postgraduate of USAS, majoring in bioengineering. He is responsible for constructing the data structure, designing CRISPR site, enzyme modification and codon optimization in Genovo project.</p>
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<h2>Zeyun Hu</h2>
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<h3>Zeyun Hu</h3>
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<p>Huzeyun is a student from Sichuan university, major in biotechnology, his is also a parter of Innovation Class of BGI. His hobby is play for the belife "life is a charming game, we should go all out."</p>
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<h2>jianhun gong</h2>
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<h3>Jianhun Gong</h3>
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<h3>Yuxiang Li</h3>
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<p>Gong just graduated from his college SCUT and now work for BGI as a bioinformatics analyst.  
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<p>Li is a postgraduate in UCAS, majoring in Bioinformatics. <br/>
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He is a crazy SBer. This year, he will lead this team and is responsible for the project, Genovo’s design and the third module, SegmMan’s implementation.
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He is a calm man and likes to speak reasonably. He concentrates on programming for nucleotide sequence editing and also data transport.</p>
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<h2>Yincheng Li</h2>
 
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/a/a5/Xiao.jpg" class="attachment-front-page-thumb wp-post-image" alt="Xinming Liang" />
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<h3>Yincheng Li</h3>
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<h3>Xinming Liang</h3>
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<p>Li is an undergraduate from SCNU, specializing in Information and Computer Science. He focus on the pathway processing. He enjoys the project and the teamwork. </p>
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<p>Liang is also a postgraduate in UCAS, same with Li. </br>
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He is responsible man. He loves badminton, orienteering, swimming and also is a HD movie fan. He focuses on programming for chromosome design in this project.</p>
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<h2>Czh</h2>
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<h3>Chao Zhang</h3>
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<p>Czh is a student from UESTC, he is insteresting in bioinformatics and web technology. In his spare time, he enjoy playing e-sports (DOTA) with his little buddies.</p>
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<h2>Luxuia</h2>
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<h3>Xujia Lu</h3>
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<p>{<br/>&nbsp;&nbsp;Name: "Xujia, Lu",<br />&nbsp;&nbsp;School: "UESTC",<br />&nbsp;&nbsp;Major: "Biomedical-Engineering",<br />&nbsp;&nbsp;Description:"too YONG too SIMPLE, sometime NAIVE"<br/>}</p>
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<h2>Undergraduate</h2>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/2013/a/a7/Gongjianhun.png" class="attachment-front-page-thumb wp-post-image" alt="gongjun" />
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<h3>Jianhui Gong</h3>
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<p>Gong just graduated from his college SCUT and now works for BGI as a synthetic biology-bioinformatics analyst. He is a crazy SBer and is responsible for chromosome segmentation. BTY, he is team leader.</p>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/2/2d/Lu.jpg" class="attachment-front-page-thumb wp-post-image" alt="Xujia Lu" />
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<h3>Xujia Lu</h3>
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<p>Xujia is from UESTC, shy in the face and gesture, but evil in the heart. He likes novel things and always does something amazing. He is very creative and for most of the time has his own ideas.</p>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/2/2b/Li.jpg" class="attachment-front-page-thumb wp-post-image" alt="Yincheng Li" />
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<h3>Yincheng Li</h3>
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<p>Li is an undergraduate from SCNU, specializing in Information and Computer Science.</br>
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He focus on the pathway processing. He enjoys the project and the teamwork. </p>
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<h2>Xianming Liang</h2>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/2/29/Zc.jpg" class="attachment-front-page-thumb wp-post-image" alt="Chao Zhang" />
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<h3>Chao Zhang</h3>
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<p>Czh is a student from UESTC, he is insteresting in bioinformatics and web technology. In his spare time, he enjoy playing e-sports (DOTA) with his little buddies.</p>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/a/a5/Xiao.jpg" class="attachment-front-page-thumb wp-post-image" alt="Xinming Liang" />
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<h3>Xinming Liang</h3>
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<p>Liang is a postgraduate in UCAS, majoring in Bioengineering. Everyone calls him "Xiao ming". He loves badminton, orienteering, swimming and other outdoor sports. In addition, he also is a HD movie fan.
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<h2>Wenzhuo Zeng</h2>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/d/d6/Zeng.jpg" class="attachment-front-page-thumb wp-post-image" alt="Wenzuo Zeng" />
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/d/d6/Zeng.jpg" class="attachment-front-page-thumb wp-post-image" alt="Wenzuo Zeng" />
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<h3>Wenzhuo Zeng</h3>
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<div class="text">
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<p>Wenzhuo or Table is an undergraduate student in SCNU, majoring in Software Engineering. She is responsible for the pathway drawing of Genovo and she has passion for doing such significant software. </p>
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<h3>Wenzhuo Zeng</h3>
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<p>Wenzhuo or Table is an undergraduate student in SCNU, majoring in Software Engineering. She is responsible for the pathway drawing of Genovo and she has passion for doing such significant software. </p>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/2013/3/35/Bx.jpg" class="attachment-front-page-thumb wp-post-image" alt="Boxian Lai" /> </a>
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<h3>Boxian Lai</h3>
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<h3>Boxian Lai</h3>
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<p>Boxian lai is student form South China Normal University, major in computer sciences. He is responsible for designing oligonucleotides and primers for synthesis on a chip.His interest is play computer program and mine information form bio_data. </p>
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<p>Boxian lai is student form SCNU, major in computer sciences. He is responsible for designing oligonucleotides and primers for synthesis on a chip.His interest is play computer program and mine information form bio_data. </p>
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<br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/b/be/Hu.jpg" class="attachment-front-page-thumb wp-post-image" alt="Zeyun Hu" />
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<h3>Zeyun Hu</h3>
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<p>Huzeyun is a student from Sichuan university, major in biotechnology, his is also a parter of Innovation Class of BGI. His hobby is play for the belife "life is a charming game, we should go all out."</p>
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<h2>Attributions & Support</h2><hr/>
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<h3>Financial support:</h3><p>
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BGI College, it paid team & attendance registration fee, traveling allowance and accommodation fee for us.</p>
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<br/><h3>Workplace & desktop & test environment provider:</h3><p>
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BGI, Shenzhen, it provided us enough room to discuss, work together, organize meetings and also at least 7 desktops. BGI also allowed us to test our plug-ins and program on mainframe.</p>
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<h1 class="team">Instructor & advisor</h1>
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<br/><h3>Server support:</h3><p>
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Thanks Dr. Huixiong Li from UESTC supports us a web server.</p>
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<br/><h3>Brain storming support:</h3><p>
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Mr. Kang Kang joined the brain-storming often to give suggestions.</p>
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<br/><h3>Software design guidance:</h3><p>
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Mr. Yun Wang assisted us to design the third module SegmMan, assembly from 2k minichunks to 10k chunks, and then to 30k megachunks.<br/>
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Dr. Patrick Yizhi Cai checked the assembly strategy, and point out some errors of design principle, especially in the homologous recombination from 30k megachunks to whole chromosome.</p>
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<br/><h3>Software based framework provider:</h3><p>
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Jbrowse & Gbrowse from GMOD.<br/>
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GeneDesign & BioStudio from Dr. Sarah Richardson of John Hopkins University.<br/>
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GASP from Dr. Eroshenko from Harvard School of Engineering and Applied Sciences.<br/></p>
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<br/><h3>Drawing support:</h3><p>
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Mr. Boxian Wang from USB helped us to copy hand painted drawings into mouse painted.</p>
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<h3>Team shirt design support:</h3><p>
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Mr. Kang Kang helped us to design two types of shirts, one for team members, another for advertising and sales.</p>
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<br/><p>We would like to thank all the people who came to South China regional workshop and gave feedbacks to us.<br/>
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Dr Jiankui He from SUSTC, Peng Nie from SYSU, Ruosang Qiu from XMU.<br/>
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And all people who withdrew our team at early time:<br/>
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Silong Sun, Jing Lu, Hanshi Xu, Yi Zhao, He Zhang and Weilin Qiu.
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<h3 class="team">Advisors</h3><br/>
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<h2>Huanming YANG</h2>
<h2>Huanming YANG</h2>
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<img width="290" height="320" src="https://static.igem.org/mediawiki/2013/9/9d/Yhm.jpg" class="attachment-front-page-thumb wp-post-image" alt="Huanming YANG" />
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<h2>Yun WANG</h2>
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<h2>Yun WANG</h2>
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<img width="290" height="320" src="https://static.igem.org/mediawiki/2013/6/6f/Wy.jpg" class="attachment-front-page-thumb wp-post-image" alt="Yun Wang" />
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<h2>Yue SHEN</h2>
<h2>Yue SHEN</h2>
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<h2>Yu CHEN</h2>
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<h2>Kang KANG</h2>
<h2>Kang KANG</h2>
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<br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/><br/>
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<hr style="color:#B09CC9; height:3px;" />
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<h1>Attribution</h1><p>
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1. Jianhui Gong designed most of the projects.<br/>
 +
2. Xujia Lu covers graphical user interface and software framework of Genovo and also the drag & drop operation method.<br/>
 +
3. Xinming Liang, Yuxiang Li and Jianhui Gong cover programming for chromosome structure constructing, nucleotide sequence editing and chromosome segmentation for assembly respectively.<br/>
 +
4. Chao Zhang covers wiki establishment.<br/>
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5. Yincheng Li covers BioStudio installation and debugging.<br/>
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6. Wenzhuo Zeng covers kgml parsing and presentation.<br/>
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7. Boxian Lai covers linking segmentation with OLS method for synthesizing DNA.<br/>
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8. Zeyun Hu covers database collecting.<br/>
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</p>
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<br/><br/>
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<h3>contact us</h3>
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<p>BGI-Shenzhen, Beishan Industrial Zone<br />
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Yantian District, Shenzhen, 518083, China</p>
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<p> <span>email:</span><br />
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<a href="mailto:gongjianhui@genomics.com">gongjianhui@genomics.com</a></p>
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</div>
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<div class="four columns" id="footer-project">
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<h3>sponsor</h3>
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<p>BGIC<br/></p>
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</div>
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<div class="five columns" id="footer-newsletter">
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<a href="https://2013.igem.org/Main_Page" ><img width="150" height="120" src="https://static.igem.org/mediawiki/2013/0/02/TB_IGEM_official_logo.png" /></a>
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</div>
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</footer>
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<div id="myModal1" class="reveal-modal">
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<h1>Yuxiang Li</h1>
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<p>He is responsible for constructing the data structure, designing CRISPR site, enzyme modification and codon optimization in Genovo project.</p>
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<a class="close-reveal-modal">&#215;</a>
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</div>
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<div id="myModal2" class="reveal-modal">
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<h1>Zeyun Hu</h1>
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<p>collect the document about our project.</p>
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<a class="close-reveal-modal">&#215;</a>
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</div>
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<div id="myModal3" class="reveal-modal">
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<h1>Jianhui Gong</h1>
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<p> he leads this team and is responsible for the project, Genovo’s design and the third module, SegmMan’s implementation.</p>
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<a class="close-reveal-modal">&#215;</a>
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</div>
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<div id="myModal4" class="reveal-modal">
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<h1>compare our software with BioStudio</h1>
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<p></p>
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<div id="myModal5" class="reveal-modal">
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<h1>Chao Zhang</h1>
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<p>He makes this wiki</p>
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<h1>Xujia LU</h1>
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<p><pre>
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{
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　　　Name: "Xujia, Lu",
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　　　School: "University of Electronic Science and Technology of China" ,
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　　　School_short: "UESTC",
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　　　Major: "Biomedical-Engineering",
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　　　Enjoy: [
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　　　　　"Cate",
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　　　　　"Gamming",
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　　　　　"Grils",
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　　　　　"Jogging",
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　　　　　"Programming",
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　　　　　"Reading",
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　　　　　"Travel"
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　　　],
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　　　Description: [
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　　　　　"too YONG too SIMPLE, sometime NAIVE"
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　　　]
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}</pre></p>
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<div id="myModal7" class="reveal-modal">
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<h1>Xinming Liang</h1>
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<p> I participate in the part of neo-chromosome construction and designing. </p>
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<a class="close-reveal-modal">&#215;</a>
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<div id="myModal8" class="reveal-modal">
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<h1>Wenzhuo Zeng</h1>
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<p>She is responsible for the pathway drawing of Genovo</p>
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</div>
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<div id="myModal9" class="reveal-modal">
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<h1>Boxian Lai</h1>
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<p>He is responsible for designing oligonucleotides and primers for synthesis on a chip.</p>
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<a class="close-reveal-modal">&#215;</a>
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</div>
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<div id="myModalcy" class="reveal-modal">
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<h1>Yu CHEN</h1>
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<p>Errrggg! Yu is busy!<br/>
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He is Research Scientist in BGI Research Institute & ZMBH PhD Candidate.
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As an observer, he is peering natural history. As an investigator, he is digging the design principle of molecular system. As an engineer, he is stacking molecular system with special function.</p>
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<h1>Yue SHNE</h1>
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<p>Yue (Chantal) Shen is the Leader of the Synthetic Biology Unit of the Beijing Genomics Institute, Shenzhen. She received her Masters degree in Biomedical Engineering from the University of Melbourne. Her work focuses on metagenomic sequencing, assembly, and characterization of genes found in the human intestinal tract. She also leads international cooperative projects, including the E. coli Central Dogma Project with the BIOFAB and the SC2.0 Project with Johns Hopkins University.</p>
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<div id="myModalwy" class="reveal-modal">
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<h1>Yun WANG</h1>
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<p>Mr. Yun Wang，project manager of Unit of Synthetic Biology in BGI.
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He is responsible for the SC2.0 project in BGI, about chrII and chrVII.</p>
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<div id="myModalkk" class="reveal-modal">
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<h1>Kang KANG</h1>
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<p>In BGI, K2 is veeeeery famous for lurking on BBS and sarcasm! As a former champion in a national robot contest, a hacker, a web engineer, a designer, a magazine editor, a citizen reporter, a filmmaker and a drama actor, he has always too many wonderings, including how life works on its core database - genome. Cracking and hacking the code of life, making actors in cell perform on his scripts, has become the primary task of this young scientist.</p>
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<div id="myModalyhm" class="reveal-modal">
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<h1>Dr.YANG</h1>
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<p>Dr. Huanming Yang is a globally recognized leader in genetic and genomic research. He founded BGI, the largest genomics organization in the world presently, in 1999. Dr. Yang and his collaborators at BGI have made significant contributions to the International Human Genome Project, the International Human HapMap project and the 1000 Genomes Project. In conjunction with its research projects, BGI has established its technical platforms based on large-scale genome sequencing, efficient bioinformatics analyses, and innovative genetic healthcare initiatives. </p>
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<script src="https://2013.igem.org/Team:Shenzhen_BGIC_0101/aaa?action=raw&ctype=text/javascript"></script>
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<h1>Support</h1>
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<h2>1. Financial support:</h2><p>
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BGI College, it paid team & attendance registration fee, travel allowance and accommodation fee for us.</p>
 +
<br/><h2>2. Workplace & desktop & test environment provider:</h2><p>
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BGI, Shenzhen, it provided us enough room to discuss, work together, organize meetings and also at least 7 desktops. BGI also allowed us to test our plug-ins and program on mainframe.</p>
 +
<br/><h2>3. Server support:</h2><p>
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Dr. Huixiong Li from UESTC and Liping Yang from BGI assisted us to establish web-server.</p>
 +
<br/><h2>4. Software design guidance:</h2><p>
 +
Mr. Yun Wang assisted us to design the third module SegmMan, assembly from 2k minichunks to 10k chunks, and then to 30k megachunks.<br/>
 +
Dr. Patrick Yizhi Cai pointed out some errors of design principle, especially in the homologous recombination from 30k megachunks to whole chromosome.</p>
 +
<br/><h2>5. Software based framework provider:</h2><p>
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Jbrowse & Gbrowse from GMOD.<br/>
 +
GeneDesign & BioStudio from Dr. Sarah Richardson of John Hopkins University.<br/>
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GASP from Dr. Eroshenko from Harvard School of Engineering and Applied <br/>
 +
Sciences<br/>
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Some nameless frameworks from D3 library and KEGG.</p>
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<br/><h2>6. Team shirt design support:</h2><p>
 +
Mr. Kang Kang helped us to design two types of shirts, one for team members, one for advertising and sales.</p>
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<br/><br/>
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Latest revision as of 11:13, 3 April 2014




Consortium

Shenzhen_BGIC_0101 is a union team:
6 universities
– UCAS, SCUT, UESTC, SCNU, SCU and HUST
9 members
– 2 postgraduates and 7 undergraduates
– They are all co-culture students between BGI college and their home universities.



Members

Postgraduate

Yuxiang Li

Yuxiang Li

Li is a postgraduate in UCAS, majoring in Bioinformatics.
He is a calm man and likes to speak reasonably. He concentrates on programming for nucleotide sequence editing and also data transport.

Xinming Liang

Xinming Liang

Liang is also a postgraduate in UCAS, same with Li.
He is responsible man. He loves badminton, orienteering, swimming and also is a HD movie fan. He focuses on programming for chromosome design in this project.
























Undergraduate

gongjun

Jianhui Gong

Gong just graduated from his college SCUT and now works for BGI as a synthetic biology-bioinformatics analyst. He is a crazy SBer and is responsible for chromosome segmentation. BTY, he is team leader.

Xujia Lu

Xujia Lu

Xujia is from UESTC, shy in the face and gesture, but evil in the heart. He likes novel things and always does something amazing. He is very creative and for most of the time has his own ideas.

Yincheng Li

Yincheng Li

Li is an undergraduate from SCNU, specializing in Information and Computer Science.
He focus on the pathway processing. He enjoys the project and the teamwork.






















Chao Zhang

Chao Zhang

Czh is a student from UESTC, he is insteresting in bioinformatics and web technology. In his spare time, he enjoy playing e-sports (DOTA) with his little buddies.

Wenzuo Zeng

Wenzhuo Zeng

Wenzhuo or Table is an undergraduate student in SCNU, majoring in Software Engineering. She is responsible for the pathway drawing of Genovo and she has passion for doing such significant software.

Boxian Lai

Boxian Lai

Boxian lai is student form SCNU, major in computer sciences. He is responsible for designing oligonucleotides and primers for synthesis on a chip.His interest is play computer program and mine information form bio_data.
























Zeyun Hu

Zeyun Hu

Huzeyun is a student from Sichuan university, major in biotechnology, his is also a parter of Innovation Class of BGI. His hobby is play for the belife "life is a charming game, we should go all out."























Instructor & advisor

Huanming YANG

Huanming YANG

Yun WANG

Yun Wang

Yue SHEN

Yue SHEN




















Yu CHEN

Yu CHEN

Kang KANG

K2



















Attribution

1. Jianhui Gong designed most of the projects.
2. Xujia Lu covers graphical user interface and software framework of Genovo and also the drag & drop operation method.
3. Xinming Liang, Yuxiang Li and Jianhui Gong cover programming for chromosome structure constructing, nucleotide sequence editing and chromosome segmentation for assembly respectively.
4. Chao Zhang covers wiki establishment.
5. Yincheng Li covers BioStudio installation and debugging.
6. Wenzhuo Zeng covers kgml parsing and presentation.
7. Boxian Lai covers linking segmentation with OLS method for synthesizing DNA.
8. Zeyun Hu covers database collecting.



Support

1. Financial support:

BGI College, it paid team & attendance registration fee, travel allowance and accommodation fee for us.


2. Workplace & desktop & test environment provider:

BGI, Shenzhen, it provided us enough room to discuss, work together, organize meetings and also at least 7 desktops. BGI also allowed us to test our plug-ins and program on mainframe.


3. Server support:

Dr. Huixiong Li from UESTC and Liping Yang from BGI assisted us to establish web-server.


4. Software design guidance:

Mr. Yun Wang assisted us to design the third module SegmMan, assembly from 2k minichunks to 10k chunks, and then to 30k megachunks.
Dr. Patrick Yizhi Cai pointed out some errors of design principle, especially in the homologous recombination from 30k megachunks to whole chromosome.


5. Software based framework provider:

Jbrowse & Gbrowse from GMOD.
GeneDesign & BioStudio from Dr. Sarah Richardson of John Hopkins University.
GASP from Dr. Eroshenko from Harvard School of Engineering and Applied
Sciences
Some nameless frameworks from D3 library and KEGG.


6. Team shirt design support:

Mr. Kang Kang helped us to design two types of shirts, one for team members, one for advertising and sales.



Retrieved from "http://2013.igem.org/Team:Shenzhen_BGIC_0101/Team"