iGEM 2015 — Team Korea_U_Seoul

# Team:Korea U Seoul/Notebook

* [![](https://static.igem.org/mediawiki/2015/b/b2/Korea_U_Seoul_Home.png)
  Home](https://2015.igem.org/Team%3AKorea_U_Seoul)
* ![](https://static.igem.org/mediawiki/2015/9/94/Korea_U_Seoul_Team.png)
  Team
  + [Members](https://2015.igem.org/Team%3AKorea_U_Seoul/Team/Members)
  + [Attributions](https://2015.igem.org/Team%3AKorea_U_Seoul/Attributions)
* ![](https://static.igem.org/mediawiki/2015/c/ca/Korea_U_Seoul_Project.png)
  Project
  + [Project overview](https://2015.igem.org/Team%3AKorea_U_Seoul/Project/Project%20overview)
  + [Biological Background](https://2015.igem.org/Team%3AKorea_U_Seoul/Project/Biological%20Background)
  + [Result & Discussion](https://2015.igem.org/Team%3AKorea_U_Seoul/Project/Result/Discussion)
  + [User guide](https://2015.igem.org/Team%3AKorea_U_Seoul/Project/Demo%20suite)
  + [Download](https://2015.igem.org/Team%3AKorea_U_Seoul/Project/Download)
* [![](https://static.igem.org/mediawiki/2013/0/00/Review.png)
  Requirement](https://2015.igem.org/Team%3AKorea_U_Seoul/Requirement/Medal%20criteria)
* [![](https://static.igem.org/mediawiki/2015/e/e9/Korea_U_Seoul_Human_Practice.png)
  Human Practice](https://2015.igem.org/Team%3AKorea_U_Seoul/Practices)
* [![](https://static.igem.org/mediawiki/2013/7/7d/Howto.png)
  Notebook](https://2015.igem.org/Team%3AKorea_U_Seoul/Notebook)

January

1st meeting

- Study software projects of previous iGEM teams

2nd meeting

- Recruit more team members

- Start to run three sub-teams: data processing, web development, and wetlab experiment

3rd meeting

- Allocate roles of each team member

- Make meeting schedules and plans

4th meeting

- Study about iGEM and synthetic biology for newcomers

- Study previous gold medal projects

February ~ March

5th meeting

- Study the program “eQuilibrator”

- Start to learn computational tools to deal with synthetic design of biochemical pathways and networks

6th meeting

- Download KEGG database

- Study about the concept of RPair of KEGG

- Design our team logo

April

7th Meeting

- Start to study visualization tools

- Make funding plan for the project

- Plan for a science day event for Human Practices

May

8th Meeting

- Continue to try to visualize toy network model

- Continue to construct networks of whole reactions and compounds

- Study about vector design

- Prepare to apply for CCP in Korea University

9th Meeting

- Analyze code of vector design from the project of SYSU-Software 2014

- Continue to construct database and develop web application

- Brainstorm topics for an experiment: Pine wilt disease, Allergen production, Luciferase for Art and Design, Photo induction >> Litography : team experiment

10th Meeting

- Continue to analyze code of vector design from the project of SYSU-Software 2014

- Continue to construct database and develop web application

- Search example pathways for program testing

11th Meeting

- Continue to construct database and develop web application

- Share the example pathway each member found

- Study how to write in JSON format and use it

June

12th Meeting

- Contact school departments and bio-corporations for funding

- Continue to construct database and develop web application

13th Meeting

- Study how to use D3.js

- Convert network data into JSON

- Study how to apply eQuilibrator to the project

July

14th Meeting

- Convert data into JSON

- Apply eQuilibrator data to our toy model

- Make brochure for funding

- Study the Judging Handbook

15th Meeting

- Create and share a ‘to do list’ of each sub-team, and set priority among those items

- Apply and check example pathways

- Look for the way to apply KEGG Atlas information to our project

- Determine which information of reactions and compounds add to our program

- Study the Judging Handbook

- Write project description!

16th Meeting

- Read articles to set pathway criteria

- Add E. coli K-12 gene data

- Write code to apply thermodynamic data

- Modify graph on web and design

17th Meeting

- Study and determine which cofactors would be added among four types of criteria

- Apply the code that calculate Gibbs energy to the toy model

- Modify input boxes of web application

- Submit CCP mid-report

- Choose a subtitle for web application

18st Network Meeting

- Modify python scripts

- Study and determine which cofactors would be added among four types of criteria

- Add polarity of reactions to the database

19nd Meeting

- Calculate the differences of ATP, NADP, NADPH, CO2 of each reactions

- Add thermodynamic data to our software

- Modify web design of the software

- Register for Giant Jamboree!

August

20rd Meeting

- Write a conti for our program tutorial

- Change KEGG IDs into chemical names

21st Meeting

- Make the tutorial

- Add glycan data to the database

22nd Meeting

- Design the banner for the Giant Jamboree

- Send mails asking a collaboration to wetlab teams

- Plan for a survey and a lecture for Human Practices

23rd Meeting

- Try to add up to two-degree compounds to each node

- Modify the web application

September

24rd Meeting

- Start to write wiki contents

- Start to prepare for the presentation

- Study API, GitHub, et cetera.

|  |  |  |  |  |
| --- | --- | --- | --- | --- |
| [![](https://static.igem.org/mediawiki/2013/f/fe/Spon1.png)](http://www.korea.edu) | [![](https://static.igem.org/mediawiki/2013/1/13/Spon2.png)](http://compbio.korea.ac.kr) | [![](https://static.igem.org/mediawiki/2013/1/1c/Spon3.png)](http://ctl.korea.ac.kr) | [![](https://static.igem.org/mediawiki/2015/e/e7/Spon3.jpg)](http://www.bioneer.co.kr/) | [![](https://static.igem.org/mediawiki/2015/2/2c/KoreaUSeoul_Sponsor_ThermoFisher.jpg)](http://www.dionexkorea.com/) |