Exercise 5.7: Making a stand-alone app for exploring parameters
Recall that in our lesson on dashboarding, we built a dashboard investigating how fold change in gene expression varies with repressor copy number \(R\) and inducer concentration \(c\). The theoretical curve is
\begin{align} \text{fold change} = \left[1 + \frac{\frac{R}{K}\left(1 + c/K_\mathrm{d}^\mathrm{A}\right)^2}{\left(1 + c/K_\mathrm{d}^\mathrm{A}\right)^2 + K_\mathrm{switch}\left(1 + c/K_\mathrm{d}^\mathrm{I}\right)^2}\right]^{-1}, \end{align}
with parameters given in the table below.
Parameter |
Description |
|---|---|
\(K_\mathrm{d}^\mathrm{A}\) |
dissoc. const. for active repressor binding IPTG |
\(K_\mathrm{d}^\mathrm{I}\) |
dissoc. const. for inactive repressor binding IPTG |
\(K_\mathrm{switch}\) |
equil. const. for switching active/inactive |
\(K\) |
dissoc. const. for active repressor binding operator |
\(R\) |
number of repressors in cell |
Rebuild that dashboard, but use JavaScript callbacks so you can have full interactivity with a stand-alone HTML file.