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CAROL
Wiki Update and Emailing Contacts
- Emailed one of the authors for the sigma 70 promoter library paper (Kanti) to ask for some protocol clarifications
- Updated wiki notebook
- Gave detailed protocol for Jamie and Emily in building sigma 70 promoter so that they can work on the library while I'm gone next week
- This morning, Kevin and I have simulated the signalling system in Simbiology via ODE 45 and stochastic way. Although the values (parameters) are not correct, the behaviour is correct.
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CHINMOYEE
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EMILY
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FAHD
CJSW Interview and Marketing Blog
Today I started my day by writing up a blog for the marketing team. The blog summarized are marketing team activity for the past two weeks. I included events such as Bake sale and the Oil Sands tour and our new sponsors (VWR Scientific and Corning Life Sciences). The blog has been posted on www.igemcalgary.blogspot.com .
I also prepared for our radio interview with our University of Calgary Community Radio Station (C JSW 90.9). Some of the things we discussed with Joe Burima (the radio jockey) included such as details about iGEM, Synthetic Biology and our project. I want to sincerely thank CJSW and Joe for their support and time.
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IMAN
Making a movie/animation for complete cascade when AI2 is present/not present. We are also working on our paper to be handed out tomorrow.
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JAMIE
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JEREMY
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KATIE
Modifying Replication and Updating Notebook
Primase for DNA replication now rezzes a primer on the top strand as well and in the proper orientation and the DNA polymerase now rezzes the nucleotides in the proper orientation as well along the leading strand although since it is in a testing stage the nucleotides will remain temporary for now. I have also started writing the script that will lock and unlock activities until it is time for the actions to be performed.
Things left to do for replication:
- Get it user friendly - I will now have to make it easier to interact with the exhibit, so avatars may specify that they have to add primers before the DNA polymerase may add nucleotides etc. The user can be asked questions and if the user is correct something ends up happening and for example, if the polymerase is not ready then give a hint. "You still need to make some primers so that the polymerase knows where to begin replication. Do you know what enzyme can do this?"
- Make a second polymerase for the lagging strand. If polymerase two says it is ready the position should be set to this and then rez nucleotides every 0.3 meters,
- Label the strands including what end it is (5’ or 3’)
I also updated May 4th and 11th in the wiki notebook and looked into constructivist theory in an attempt to find out more about the reasons as to why education in Second Life has the possibility to be a successful educational platform.
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KEVIN
Competent cells
The TOP10 cells with Pqrr4+I13500 plasmid have been made competent again in order to test the mutants.
Worked on symbiology models
Our previous AI-2 model has been improved, and now it is able to produce a visual representation of our model. The following graph represents the system without AI-2, and when there are 20 Pqrr4 promoters in the cell:
The next graph represents the system without AI-2, and when there is only 1 Pqrr4 promoter in the cell:
Although most of the initial values and reaction rates of the parameters are not accurate, one can see from above graphs that the production of GFP drastically decreases when the amount of Pqrr4 promoter decreases from 20 to 1.
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MANDY
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PATRICK
One of those days.
Accomplishments today were a bit of a mixed bag:
- Did some planning for what time I have left to spend on the second life island this summer, and planned out which sections I want to complete.
- Couriered a Biobrick to another iGEM team. Waited on the phone with DHL for twenty minutes to find out what one has to do to ship DNA internationally. Gold medal, here we come!
- Helped Mandy sketch some of the buttons, for the Biobrick simulator UI.
- Set up a computer with some microscope camera software for some other students sharing our lab space.
- Finally found a couple of hours to accomplish something! Wrote the last code for the Biobricker, which is virtually complete now.
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PRIMA
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STEFAN
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VICKI
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