<p style="font-family: quicksand;font-size:150%;">Screening by our software</p>
<p style="font-family: quicksand;font-size:150%;">Screening by our software</p>
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To minimize the manpower on screening of the switches, we constructed an online toehold switch design program. Apart from basic thermodynamic parameters, it also screens for other factors(link to the software page of the wiki). Ultimately, the program generated a list of possible toehold switch sequences according to many different free energy parameters using the ViennaRNA library[2]. The graph below shows 394 possible H5 toehold switches generated by our software. The assumptions motioned earlier stated 3 very important parameters for the selection of switch candidates with the greatest possible performances: Switch MFE, ΔG<sub>RBS-linker</sub>, and ΔMFE. We applied these parameters to our switch selection process: We first chose the switches that with the highest ΔG<sub>RBS-linker</sub> (-3.8 kcal/mol). Among those switches, we chose the 3 switches with the lowest switch MFE and the highest ΔMFE.
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To minimize the manpower on screening of the switches, we constructed an online toehold switch design program. Apart from basic thermodynamic parameters, it also screens for other factors(please visit our <a href="https://2017.igem.org/Team:Hong_Kong-CUHK/Software"> software page </a>. Ultimately, the program generated a list of possible toehold switch sequences according to many different free energy parameters using the ViennaRNA library[2]. The graph below shows 394 possible H5 toehold switches generated by our software. The assumptions motioned earlier stated 3 very important parameters for the selection of switch candidates with the greatest possible performances: Switch MFE, ΔG<sub>RBS-linker</sub>, and ΔMFE. We applied these parameters to our switch selection process: We first chose the switches that with the highest ΔG<sub>RBS-linker</sub> (-3.8 kcal/mol). Among those switches, we chose the 3 switches with the lowest switch MFE and the highest ΔMFE.
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<p>Figure 2: ΔG<sub>RBS-linker</sub> of switch candidates generated from an example RNA sequence input by our software</p>
<p>Figure 2: ΔG<sub>RBS-linker</sub> of switch candidates generated from an example RNA sequence input by our software</p>