Difference between revisions of "Template:SYSU-Software/statics/html/Projects/Validation.html"

       Due to the lack of time, we chose to cooperate with XJTU-China, using their experimental data to validate our
       simulation module and evolutionary algorithm in CO-RAD.
       <img class="wet-valid" src="">

       In this genetic circuit above, PsiR is a predicted LacI family transcription factor with high affinity for
       D-Psicose. This implies that PsiR is potentially capable of binding a consensus sequence in the promoter region
       and preventing transcription of the regulated promoters in the absence of D-Psicose. With addition of
       D-psicose, EGFP can be successfully produced.

       With our visual designer and the embedded mathematical ODE systems model, we constructed XJTU-China’s circuit
       and dynamically analyzed the amounts of materials in it. We pay attention to the expression of EGFP, since its
       amount can be evaluated in unit of optical density. Related formulas and parameters are shown below:
       $$\frac{d[PsiR]}{dt} = \frac{k_{PsiR}[gene]_{PsiR}}{1+[Psicose]^n1}-d_{PsiR}[PsiR]$$
       $$\frac{d[EGFP]}{dt} = \frac{k_{EGFP}[gene]_{EGFP}}{1+[PsiR]^n2}-d_{PsiR}[EGFP]$$

       simulation result:

       Compared with experimental data of XJTU-China, our software simulation showed good
       performance, which proved that our simulation works.

       In terms of evolutionary algorithm, we input the related parameters including target production amounts,
       initial material amount, degradation rate and repression rate, and use the optimization module to optimize
       kinetic parameter. We find optimization result is similar with experimental result, as well as optimized K with
       experimental K. Here are the results:

       Results prove the robustness of our ODE systems models and evolutionary algorithm.