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Every iGEM team have its strength and weaknesses. And every project have flaws that could not be seen in a single perspective. Through in-depth collaborations, we can complement each other’s weakness with our strength, and refine our project by evaluating one another. | Every iGEM team have its strength and weaknesses. And every project have flaws that could not be seen in a single perspective. Through in-depth collaborations, we can complement each other’s weakness with our strength, and refine our project by evaluating one another. | ||
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− | <h2> | + | <h2>Mentoring with UCCKE</h2> |
The Hong Kong UCCKE team aims to create biobricks that detect and control gout by degrading uric acid and transport it. The Hong Kong UCCKE team presented their idea to us and we proposed that they can run an assay with plate reader measuring the fluorescence signal of the detection module, and incubating transformed E. coli in LB medium with saturated uric acid over night for the assay of the degradation module. Detailed protocols can be viewed here. | The Hong Kong UCCKE team aims to create biobricks that detect and control gout by degrading uric acid and transport it. The Hong Kong UCCKE team presented their idea to us and we proposed that they can run an assay with plate reader measuring the fluorescence signal of the detection module, and incubating transformed E. coli in LB medium with saturated uric acid over night for the assay of the degradation module. Detailed protocols can be viewed here. | ||
We have visited each others lab and presented our project in July, and we have suggested them to amplify the synthesized DNA from IDT for stock and use screening method other than restriction digestion(e.g TA clone) as the insert and vector have similar size. We also pointed the need of negative and positive controls in their assays. | We have visited each others lab and presented our project in July, and we have suggested them to amplify the synthesized DNA from IDT for stock and use screening method other than restriction digestion(e.g TA clone) as the insert and vector have similar size. We also pointed the need of negative and positive controls in their assays. | ||
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The Hong Kong HKUST team aspire to create a safety switch that would not compromise the functionality of original biobrick, but able to revert the transformant back to wild-type with time. We helped HKUST team’s progress by providing them a Cython-implemented Python interface. It enables them to use the ViennaRNA package functions(written in C language) in Python interface, so they can easily model the dissociation constant for the antisense mRNA and transcript mRNA. | The Hong Kong HKUST team aspire to create a safety switch that would not compromise the functionality of original biobrick, but able to revert the transformant back to wild-type with time. We helped HKUST team’s progress by providing them a Cython-implemented Python interface. It enables them to use the ViennaRNA package functions(written in C language) in Python interface, so they can easily model the dissociation constant for the antisense mRNA and transcript mRNA. | ||
We also help characterizing their biobricks by running an GFP assay, for detailed protocols check out here. In return, they provided us two Python scripts for our modelling of free energies of opened and closed toehold switches, by plotting ODE-based model and stochastic model using Euler’s method and Gillespie algorithm respectively. This facilitates our screening of optimal toehold switches in our program. | We also help characterizing their biobricks by running an GFP assay, for detailed protocols check out here. In return, they provided us two Python scripts for our modelling of free energies of opened and closed toehold switches, by plotting ODE-based model and stochastic model using Euler’s method and Gillespie algorithm respectively. This facilitates our screening of optimal toehold switches in our program. | ||
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+ | <img src="https://static.igem.org/mediawiki/2017/5/5d/CUHK_UST.jpg" width="50%" height="auto"> | ||
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Protocols: | Protocols: |
Revision as of 10:42, 21 October 2017