Team:Shenzhen BGIC 0101/Team

From 2013.igem.org

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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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<p>Shenzhen_BGIC_0101 is a union team:<br/>
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Students from five different universities have contributed to this project.</p><p>including:<br/>
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6 universities<br/>
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- Huazhong University of Science and Technology, China<br/>
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– UCAS, SCUT, UESTC, SCNU, SCU and HUST<br/>
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- Sichuan University, China<br/>
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9 members<br/>
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- South China University of Technology, China<br/>
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– 2 postgraduates and 7 undergraduates
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- University of Electronic Science and Technology of China, China<br/>
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– They are all co-culture students between BGI college and their home universities.</br>
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- South China Normal University, China<br/></b></p><br/>
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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/3/3a/Xiang.jpg" class="attachment-front-page-thumb wp-post-image" alt="Yuxiang Li" />
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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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<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.</p>
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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.</p>
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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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<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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<img width="290" height="135" src="https://static.igem.org/mediawiki/igem.org/3/3a/Xiang.jpg" class="attachment-front-page-thumb wp-post-image" alt="Yuxiang Li" />
 
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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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<h3>Jianhun Gong</h3>
 
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<p>Gong just graduated from his college SCUT and now work for BGI as a bioinformatics analyst. 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.</p>
 
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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.</p>
 
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<h1>Attributions & Support</h1>
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<h1>Attribution</h1><p>
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<h2>Financial support:</h2><p>
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1. Jianhui Gong designed most of the projects.<br/>
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BGI College, it paid team & attendance registration fee, traveling allowance and accommodation fee for us.</p>
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2. Xujia Lu covers graphical user interface and software framework of Genovo and also the drag & drop operation method.<br/>
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<br/><h2>Workplace & desktop & test environment provider:</h2><p>
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3. Xinming Liang, Yuxiang Li and Jianhui Gong cover programming for chromosome structure constructing, nucleotide sequence editing and chromosome segmentation for assembly respectively.<br/>
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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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<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>
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<br/><h2>2. Workplace & desktop & test environment provider:</h2><p>
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>
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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<br/><h2>Server support:</h2><p>
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<br/><h2>3. Server support:</h2><p>
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Thanks Dr. Huixiong Li from UESTC supports us a web server.</p>
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Dr. Huixiong Li from UESTC and Liping Yang from BGI assisted us to establish web-server.</p>
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<br/><h2>Brain storming support:</h2><p>
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<br/><h2>4. Software design guidance:</h2><p>
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Mr. Kang Kang joined the brain-storming often to give suggestions.</p>
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<br/><h2>Software design guidance:</h2><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/>
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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Dr. Patrick Yizhi Cai pointed out some errors of design principle, especially in the homologous recombination from 30k megachunks to whole chromosome.</p>
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<br/><h2>Software based framework provider:</h2><p>
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<br/><h2>5. Software based framework provider:</h2><p>
Jbrowse & Gbrowse from GMOD.<br/>
Jbrowse & Gbrowse from GMOD.<br/>
GeneDesign & BioStudio from Dr. Sarah Richardson of John Hopkins University.<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 Sciences.<br/></p>
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GASP from Dr. Eroshenko from Harvard School of Engineering and Applied <br/>
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<br/><h2>Drawing support:</h2><p>
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Sciences<br/>
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Mr. Boxian Wang from USB helped us to copy hand painted drawings into mouse painted.</p>
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Some nameless frameworks from D3 library and KEGG.</p>
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<h2>Team shirt design support:</h2><p>
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<br/><h2>6. Team shirt design support:</h2><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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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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<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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Revision as of 01:25, 28 October 2013




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

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.

Xinming Liang

Xinming Liang

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.




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.

Xujia Lu

Xujia Lu

{
  Name: "Xujia, Lu",
  School: "UESTC",
  Major: "Biomedical-Engineering",
  Description:"too YONG too SIMPLE, sometime NAIVE"
}

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 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.




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.



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