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Team:Wageningen UR/Notebook/Proj1/March
From 2011.igem.org
March - Synchronized Oscillatory System
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February 2
Problem with repressilator: signal loses clarity after subsequent rounds. Two approaches to solve this: 1. Use three-gene repressilator together with protease which degrades transcription factors which prevent steady state. 2. Use five-step repressilator to give transcription factors more time to degrade to keep the non- steady state active.
February 15
A list has to be made of all BioBrick parts that are possibly useful for this project.
February 22
The BioBrick parts table has to be updated. The table should contain the sequences and functions of the parts, and information on whether the parts are tested or not and whether they work or not.
March 8
The pathways have been modelled in Tinkercell. The model is divided into three modules: the quorum sensing/synchronising module, the luciferase regenerating module and the dual quorum sensing/synchronising module. We need to make a gene list for each module, preferably completely biobricked. The design has to be evaluated and modeled. Therefore, more information is needed on the transcription, translation, diffusion and degradation rates.
March 22
We have to make a list of which BioBrick parts we exactly need for the overall design.
March 29
Modeling turns out to be difficult. We decide we need a few tutorials on how to model things in MATLAB.
