From: Don Armstrong <don@donarmstrong.com>
Date: Tue, 21 Mar 2017 02:24:14 +0000 (-0700)
Subject: add kinetic parameters
X-Git-Url: https://git.donarmstrong.com/?p=ool%2Flipid_simulation_formalism.git;a=commitdiff_plain;h=9b565441795bf80072efe494918e76cc5dab3dc6

add kinetic parameters
---

diff --git a/kinetic_formalism_competition.Rnw b/kinetic_formalism_competition.Rnw
index 2a47cf4..c008d79 100644
--- a/kinetic_formalism_competition.Rnw
+++ b/kinetic_formalism_competition.Rnw
@@ -153,22 +153,22 @@ kf <- (as.numeric(kf.prime)*10^-3)/(63e-20*6.022e23)
 Each of the 5 lipid types has different kinetic parameters; where
 available, these were taken from literature.
 
-% \begin{table}
-%   \centering
-%   \begin{tabular}{c c c c c c c c}
-%     \toprule
-%     Type & $k_\mathrm{f}$ $\left(\frac{\mathrm{m}}{\mathrm{s}}\right)$ & $k'_\mathrm{f}$ $\left(\frac{1}{\mathrm{M} \mathrm{s}}\right)$ & $k_\mathrm{b}$ $\left(\mathrm{s}^{-1}\right)$ & Area $\left({Å}^2\right)$ & Charge & $\mathrm{CF}1$ & Curvature \\
-%         \midrule
-%     PC   & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[1]))}$ & $3.7 \times 10^6$ & $2   \times 10^{-5}$ & 63 & 0  & 2  & 0.8  \\
-%     PS   & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[2]))}$ & $3.7 \times 10^6$ & $1.25\times 10^{-5}$ & 54 & -1 & 0  & 1    \\
-%     CHOL & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[3]))}$ & $5.1 \times 10^7$ & $2.8 \times 10^{-4}$ & 38 & 0  & -1 & 1.21 \\
-%     SM   & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[4]))}$ & $3.7 \times 10^6$ & $3.1 \times 10^{-3}$ & 61 & 0  & 3  & 0.8  \\
-%     PE   & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[5]))}$ & $2.3 \times 10^6$ & $1   \times 10^{-5}$ & 55 & 0  & 0  & 1.33 \\
-%     \bottomrule
-%   \end{tabular}
-%   \caption{Kinetic parameters and molecular properties of lipid types}
-%   \label{tab:kinetic_parameters_lipid_types}
-% \end{table}
+\begin{table}
+  \centering
+  \begin{tabular}{c c c c c c c c}
+    \toprule
+    Type & $k_\mathrm{f}$ $\left(\frac{\mathrm{m}}{\mathrm{s}}\right)$ & $k'_\mathrm{f}$ $\left(\frac{1}{\mathrm{M} \mathrm{s}}\right)$ & $k_\mathrm{b}$ $\left(\mathrm{s}^{-1}\right)$ & Area $\left({Å}^2\right)$ & Charge & $\mathrm{CF}1$ & Curvature \\
+        \midrule
+    PC   & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[1]))}$ & $3.7 \times 10^6$ & $2   \times 10^{-5}$ & 63 & 0  & 2  & 0.8  \\
+    PS   & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[2]))}$ & $3.7 \times 10^6$ & $1.25\times 10^{-5}$ & 54 & -1 & 0  & 1    \\
+    CHOL & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[3]))}$ & $5.1 \times 10^7$ & $2.8 \times 10^{-4}$ & 38 & 0  & -1 & 1.21 \\
+    SM   & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[4]))}$ & $3.7 \times 10^6$ & $3.1 \times 10^{-3}$ & 61 & 0  & 3  & 0.8  \\
+    PE   & $\Sexpr{to.latex(format(digits=3,scientific=TRUE,kf[5]))}$ & $2.3 \times 10^6$ & $1   \times 10^{-5}$ & 55 & 0  & 0  & 1.33 \\
+    \bottomrule
+  \end{tabular}
+  \caption{Kinetic parameters and molecular properties of lipid types}
+  \label{tab:kinetic_parameters_lipid_types}
+\end{table}
 
 %%% \DLA{I think we may just reduce these three sections; area, $k_\mathrm{f}$
 %%%   and $k_\mathrm{b}$ to \cref{tab:kinetic_parameters_lipid_types} with