Difference between revisions of "Team:Queens Canada/Model"
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<h1>Modeling</h1> | <h1>Modeling</h1> | ||
| − | <p>We determined that the linkers between the GR-LBD and the inteins halfs would need to be flexible as there is no direct path connecting the termini and they would require the flexibility to meet each other and produces a trans-splicing event. To determine which linker would be ideal we ran simulations of Root-mean-square deviation of atomic positions to determine optimal linker length and composition. Firstly we chose various linker designs inspired from previous work [a,b], then the entropy equations were run on the Queen’s University Computer Cluster for 7 days by Dr. Campbell. | + | <p>We determined that the linkers between the GR-LBD and the inteins halfs would need to be flexible as there is no direct path connecting the termini and they would require the flexibility to meet each other and produces a trans-splicing event. To determine which linker would be ideal we ran simulations of Root-mean-square deviation of atomic positions to determine optimal linker length and composition. Firstly we chose various linker designs inspired from previous work [a,b], then the entropy equations were run on the Queen’s University Computer Cluster for 7 days by Dr. Campbell.</p> |
<ol> | <ol> | ||
<li><a href="http://parts.igem.org/Protein_domains/Linker">http://parts.igem.org/Protein_domains/Linker</a></li> | <li><a href="http://parts.igem.org/Protein_domains/Linker">http://parts.igem.org/Protein_domains/Linker</a></li> | ||
<li><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3726540/">https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3726540/</a></li> | <li><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3726540/">https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3726540/</a></li> | ||
</ol> | </ol> | ||
| − | Another aspect of our project we south to model, was which pacifier design would allow for optimal detection of the luminescence signal. Eric modelled this through a MatLab simulation of the “Narrow escape problem”.... | + | <p>Another aspect of our project we south to model, was which pacifier design would allow for optimal detection of the luminescence signal. Eric modelled this through a MatLab simulation of the “Narrow escape problem”.... |
</p> | </p> | ||
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Revision as of 19:58, 18 July 2018
Computer Aided Design
Pacifier Design - Nipple, Cherry Baglet Vs. One way flow. Negative Pressure
Modeling
We determined that the linkers between the GR-LBD and the inteins halfs would need to be flexible as there is no direct path connecting the termini and they would require the flexibility to meet each other and produces a trans-splicing event. To determine which linker would be ideal we ran simulations of Root-mean-square deviation of atomic positions to determine optimal linker length and composition. Firstly we chose various linker designs inspired from previous work [a,b], then the entropy equations were run on the Queen’s University Computer Cluster for 7 days by Dr. Campbell.
Another aspect of our project we south to model, was which pacifier design would allow for optimal detection of the luminescence signal. Eric modelled this through a MatLab simulation of the “Narrow escape problem”....