Line 59: | Line 59: | ||
<div class="column full_size"> | <div class="column full_size"> | ||
− | <p style="font-family: quicksand;font-size:150%;">Assumptions | + | <p style="font-family: quicksand;font-size:150%;">Assumptions</p><br> |
− | <p style="font-family: roboto;font-size:125%;"><u><b>Assumption: Switch MFE | + | <p style="font-family: roboto;font-size:125%;"><u><b>Assumption: Switch MFE (Minimum Free Energy) correlates with the expression leakage</p></b></u> |
<p style="font-family: roboto;font-size:115%;"> | <p style="font-family: roboto;font-size:115%;"> | ||
− | >> Switch MFE is the Gibbs free energy | + | >> Switch MFE is the minimum Gibbs free energy that a toehold switch could have among all the possible structures.<br> |
− | >> | + | >> Expression leakage is a phenomenon where the reporter (i.e. Red Fluorescent Protein in our project) is expressed in the absence of trigger RNA. The level of leakage can be measured as:<br> |
− | To activate toehold switch, an amount of energy is needed to open the toehold switch hairpin. Switch MFE reflects the difficulty for the toehold switch | + | To activate toehold switch, an amount of energy is needed to open the toehold switch hairpin. The Switch MFE reflects the difficulty for the toehold switch unwinding process. We assume that the more negative the Switch MFE, the harder for the unwinding to take place, and hence a lower leakage.</p> |
<br> | <br> | ||
<u><b><p style="font-family: roboto;font-size:125%;">Assumption:∆ G RBS-Linker ∝ Dynamic range</p></b></u> | <u><b><p style="font-family: roboto;font-size:125%;">Assumption:∆ G RBS-Linker ∝ Dynamic range</p></b></u> |
Revision as of 06:25, 1 November 2017