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Team:NC School of Sci Math/Lab Notebook
From 2013hs.igem.org
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<h4><a style="color:#00008B; float:right;" name="03/27/2013">03/27/2013</a></h4> | <h4><a style="color:#00008B; float:right;" name="03/27/2013">03/27/2013</a></h4> | ||
</html> | </html> | ||
| + | <b> Update on Proposal </b> | ||
* Proposal is coming along well | * Proposal is coming along well | ||
* Need to finish the methods, but otherwise complete | * Need to finish the methods, but otherwise complete | ||
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<h4><a style="color:#00008B; float:right;" name="03/29/2013">03/29/2013</a></h4> | <h4><a style="color:#00008B; float:right;" name="03/29/2013">03/29/2013</a></h4> | ||
</html> | </html> | ||
| - | + | <b>Proposal is completed </b> | |
* Will submit soon | * Will submit soon | ||
<html> | <html> | ||
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<h4><a style="color:#00008B; float:right;" name="04/17/2013">04/17/2013</a></h4> | <h4><a style="color:#00008B; float:right;" name="04/17/2013">04/17/2013</a></h4> | ||
</html> | </html> | ||
| + | <b> Tinkercell Model </b> | ||
* Danny has a working Tinkercell model for the copper detector! | * Danny has a working Tinkercell model for the copper detector! | ||
**Outputs increased levels of TagRFP as ion concentration increases | **Outputs increased levels of TagRFP as ion concentration increases | ||
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<h4><a name="04/27/2013">04/27/2013</a></h4> | <h4><a name="04/27/2013">04/27/2013</a></h4> | ||
</html> | </html> | ||
| + | <b> Preliminary testing with the ADK </b> | ||
* We want to work with the ADK for the next couple of weeks | * We want to work with the ADK for the next couple of weeks | ||
* Jack will attempt to code the ADK so it outputs to a text file | * Jack will attempt to code the ADK so it outputs to a text file | ||
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<h4><a name="05/04/2013">05/04/2013</a></h4> | <h4><a name="05/04/2013">05/04/2013</a></h4> | ||
</html> | </html> | ||
| + | <b> Upcoming ADK Testing </b> | ||
* The ADK has been coded | * The ADK has been coded | ||
* We have glow sticks, E. coli expressing GFP, and dim LEDs to test | * We have glow sticks, E. coli expressing GFP, and dim LEDs to test | ||
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<h4><a name="05/07/2013">05/07/2013</a></h4> | <h4><a name="05/07/2013">05/07/2013</a></h4> | ||
</html> | </html> | ||
| + | <b> Data from the ADK preliminary experiment </b> | ||
* Tested the sensing ability of the ADK today | * Tested the sensing ability of the ADK today | ||
* Data is output in the form of the file below | * Data is output in the form of the file below | ||
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<h4><a name="05/17/2013">05/17/2013</a></h4> | <h4><a name="05/17/2013">05/17/2013</a></h4> | ||
</html> | </html> | ||
| + | <b> Completed Biobrick </b> | ||
* Everyone should begin working to finish their individual parts before the wiki freeze | * Everyone should begin working to finish their individual parts before the wiki freeze | ||
* Jack and Danny will take results from the Tinkercell model | * Jack and Danny will take results from the Tinkercell model | ||
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<h4><a name="06/06/2013">06/06/2013</a></h4> | <h4><a name="06/06/2013">06/06/2013</a></h4> | ||
</html> | </html> | ||
| + | <b> Experimentation Data </b> | ||
* Poster abstract, introduction, and methods are completed | * Poster abstract, introduction, and methods are completed | ||
* The Tinkercell data shows our part effectively responds to the influx of the ions for which we are testing | * The Tinkercell data shows our part effectively responds to the influx of the ions for which we are testing | ||
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<h4><a name="06/15/2013">06/15/2013</a></h4> | <h4><a name="06/15/2013">06/15/2013</a></h4> | ||
</html> | </html> | ||
| + | <b> Poster Update </b> | ||
* Draft poster is complete! | * Draft poster is complete! | ||
[[File:Poster.jpg]] | [[File:Poster.jpg]] | ||
Revision as of 15:12, 20 June 2013
2013
Home Team Project Details Lab Notebook Results Human Impact Biosafety Acknowledgments Official Team Profile
Lab Notebook
Planning and Development
01/11/2013
Brainstorming for project ideas
- LDL-cholesterol biosensor
- Ocean salinity regulator (especially for coral reefs)
- Water contaminant multibiosensor
More research should be done
- Find related projects that have been completed
- Obstacles?
- BioBricks?
- Presentations in 3-4 weeks
01/18/2013
Discussions of each project
- LDL-cholesterol biosensor
- Could be used as a blood test
- Blood sugar monitor-like device
- Hard to measure any color change in blood
- Ocean salinity regulator (especially for coral reefs)
- Need a lot of bacteria
- Environmental concerns
- Bacteria can do well in coral reefs
- Water contaminant multibiosensor
- Several Biobrick promoters for common contaminants
- Usage in sewer tanks
- Many different colors of fluorescent proteins
- Could incorporate newer technology for better color-sensing
- Will look up data on promoter/FP expression
02/01/2013
Presentations
- All ideas sound promising
- Meet next week to decide which idea to pursue
02/08/2013
Decision on project
- LDL-cholesterol idea won't work
- Costly and hard to detect FPs in blood
- Multibiosensor is appealing
- Many applications
- Expandable with many different FPs
- Could bring in new technology
- Ocean salinity regulator is difficult because of the ocean
- Environmental factors and unknown variables
Multibiosensor chosen
02/15/2013
A few members met with Mr. Jon Davis to discuss potential technology
- Suggested a Google device called ADK
- Comes with a colorimeter
- Can be programmed for many functions
- School has a few we could try out
02/22/2013
Goals for the immediate future
- Find Biobricks
- Set up schedule for lab work
- Further research into possible uses
- Preliminary lab experiments
Project Proposal
03/01/2013
Discussion of upcoming project proposal:
- Introduction, Solution Statement, and Methods
- Need to find out some background information
- Should make use of Tinkercell modeling
03/04/2013
Assignments of roles for the upcoming project proposal:
- Madeline will investigate background information
- Danny will work on Tinkercell models
- Jack will write the solution statement and methods sections
- Synthesize our writing on a Google Doc
- Try to have individual parts done in about 2 weeks
03/18/2013
The following models have been created
- We should use these in the proposal, but continue to work on the Tinkercell model
03/25/2013
Everyone began editing the proposal on a Google Doc today
- Want to be finished by March 29th
- Tinkercells will probably not be ready in time
- Having a lot of trouble getting fluorescent protein levels to zero when they should be
- Danny will talk to Morgan to see if he can help
- Edit Edit Edit!
03/27/2013
Update on Proposal- Proposal is coming along well
- Need to finish the methods, but otherwise complete
- Take pictures of the ADK and lab work
03/29/2013
Proposal is completed- Will submit soon
04/06/2013
Time to focus on creating the plasmid
- Finished Tinkercell model will help a bunch
- Do we want to think about ordering de novo from a gene synthesis company?
- Computer modeling is the best approach for now
04/17/2013
Tinkercell Model- Danny has a working Tinkercell model for the copper detector!
- Outputs increased levels of TagRFP as ion concentration increases
- We should be able to figure out the others soon
- The lead detector may be especially difficult because the ion binds to a promoter to create a transcription factor
Experimentation
04/27/2013
Preliminary testing with the ADK- We want to work with the ADK for the next couple of weeks
- Jack will attempt to code the ADK so it outputs to a text file
- Potential preliminary tests
- Diluted glow sticks
- Dimmed LED lights
- pGLO E. coli
05/04/2013
Upcoming ADK Testing- The ADK has been coded
- We have glow sticks, E. coli expressing GFP, and dim LEDs to test
- Testing this Tuesday
05/07/2013
Data from the ADK preliminary experiment- Tested the sensing ability of the ADK today
- Data is output in the form of the file below
- The pGLO E. coli is the most closely related to our project and data is shown below
- Data from LED lights is very similar but allowed us to understand the sensing "logic" of the ADK
- Showing red, green, or blue light increases only the color being shown
- Showing yellow light increases both red and green light
- Can identify which color is being shown from the data
05/17/2013
Completed Biobrick- Everyone should begin working to finish their individual parts before the wiki freeze
- Jack and Danny will take results from the Tinkercell model
- Sequences for all parts have been found and the Biobrick as a whole is "completed"
- Meet next week to start uploading everything to the wiki and start to design the poster
06/06/2013
Experimentation Data- Poster abstract, introduction, and methods are completed
- The Tinkercell data shows our part effectively responds to the influx of the ions for which we are testing
- We will write up the results in the coming week
06/15/2013
Poster Update- Draft poster is complete!
- Will continue to edit
- Need to start adding all of our stuff to the wiki
