ndwarshuis
/
phd_thesis
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

ENH update causal inference tables

This commit is contained in:
Nathan Dwarshuis 2021-08-13 17:30:30 -04:00
parent b1467ce850
commit cda05259cb
3 changed files with 41 additions and 37 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

50
tables/causal_inference_control.tex
View File

@ -1,37 +1,39 @@
% Table created by stargazer v.5.2.2 by Marek Hlavac, Harvard University. E-mail: hlavac at fas.harvard.edu % Table created by stargazer v.5.2.2 by Marek Hlavac, Harvard University. E-mail: hlavac at fas.harvard.edu
% Date and time: Fri, Jul 23, 2021 - 12:30:10 PM % Date and time: Fri, Aug 13, 2021 - 04:48:47 PM
\begin{tabular}{@{\extracolsep{5pt}}lccc} \begin{tabular}{@{\extracolsep{5pt}}lccc}
\\[-1.8ex]\hline \\[-1.8ex]\hline
\hline \\[-1.8ex] \hline \\[-1.8ex]
% & \multicolumn{3}{c}{\textit{Dependent variable:}} \\ % & \multicolumn{3}{c}{\textit{Dependent variable:}} \\
% \cline{2-4} % \cline{2-4}
\\[-1.8ex] & log(Fold Change) & \ptmemp{} & \dpthp{} \\ \\[-1.8ex] & log(Fold Change) & \ptmemp{} & \dpthp{} \\
% \\[-1.8ex] & (1) & (2) & (3)\\
\hline \\[-1.8ex] \hline \\[-1.8ex]
Activation Method [DMS] & 0.890$^{***}$ & 0.027$^{**}$ & 0.089$^{***}$ \\ Activation Method [DMS] & 0.836$^{***}$ & 0.035$^{***}$ & 0.074$^{***}$ \\
Bioreactor [Grex] & $-$1.712$^{***}$ & $-$0.464$^{***}$ & 0.333$^{***}$ \\ Bioreactor [Grex] & $-$1.719$^{***}$ & $-$0.463$^{***}$ & 0.331$^{***}$ \\
Feed Criteria [Glucose] & $-$0.143 & $-$0.017 & $-$0.001 \\ Feed Criteria [Glucose] & $-$0.148 & $-$0.016 & $-$0.002 \\
IL2 Feed Conc. [IU/ml] & $-$0.007$^{***}$ & 0.0002 & 0.001$^{***}$ \\ IL2 Feed Conc. [IU/ml] & $-$0.007$^{***}$ & 0.0002 & 0.001$^{***}$ \\
CD19-CAR Transduced [True] & $-$1.015$^{***}$ & 0.585$^{***}$ & $-$0.171$^{***}$ \\ CD19-CAR Transduced [True] & $-$1.038$^{***}$ & 0.589$^{***}$ & $-$0.178$^{***}$ \\
Donor Age & 0.066$^{***}$ & $-$0.001 & $-$0.014$^{***}$ \\ Donor Age (years) & 0.066$^{***}$ & $-$0.001 & $-$0.014$^{***}$ \\
Donor BMI (kg/m2) & $-$0.265$^{***}$ & $-$0.045$^{***}$ & 0.070$^{***}$ \\ Donor BMI (kg/m2) & $-$0.262$^{***}$ & $-$0.045$^{***}$ & 0.071$^{***}$ \\
Donor Gender & $-$2.213$^{***}$ & $-$0.190$^{***}$ & 0.391$^{***}$ \\ Donor Gender & $-$2.204$^{***}$ & $-$0.192$^{***}$ & 0.394$^{***}$ \\
Donor Demographic [Cauc.] & $-$1.325 & 0.498$^{***}$ & $-$0.289$^{***}$ \\ Donor Demographic [Cauc.] & $-$1.373$^{*}$ & 0.506$^{***}$ & $-$0.303$^{***}$ \\
Donor Demographic [Cauc./Pac. Isl.] & $-$4.154$^{***}$ & 0.646$^{***}$ & $-$0.251$^{**}$ \\ Donor Demographic [Cauc./Pac. Isl.] & $-$4.174$^{***}$ & 0.649$^{***}$ & $-$0.257$^{**}$ \\
Initial Cell Viability & $-$0.064$^{**}$ & $-$0.007$^{**}$ & 0.027$^{***}$ \\ Initial Cell Viability & 1.355 & 0.408$^{***}$ & $-$0.716$^{***}$ \\
log(Initial CD4:CD8 Ratio) & $-$1.279$^{***}$ & 0.050 & 0.366$^{***}$ \\ log(Initial CD4:CD8 Ratio) & $-$0.064$^{**}$ & $-$0.007$^{**}$ & 0.027$^{***}$ \\
Media Age (days) & 0.0004 & $-$0.001$^{***}$ & 0.0002 \\ Media Age (days) & $-$1.283$^{***}$ & 0.050 & 0.365$^{***}$ \\
Thaw Media Age (days) & $-$0.0005 & 0.001$^{***}$ & $-$0.0004$^{***}$ \\ Thaw Media Age (days) & 0.0004 & $-$0.001$^{***}$ & 0.0002 \\
IL2 Reconstituted Age & $-$0.0001 & 0.00000 & 0.0002 \\ IL2 Reconstituted Age & $-$0.0005 & 0.001$^{***}$ & $-$0.0004$^{***}$ \\
Operator [2] & $-$0.651$^{***}$ & 0.044$^{*}$ & 0.034 \\ Operator [2] & $-$0.0001 & 0.00000 & 0.0002$^{*}$ \\
Operator [3] & $-$0.343 & $-$0.201$^{***}$ & 0.180$^{***}$ \\ Operator [3] & $-$0.661$^{***}$ & 0.045$^{**}$ & 0.031 \\
Media Sampled [True] & $-$0.303 & $-$0.023 & 0.051 \\ Media Sampled [True] & $-$0.317 & $-$0.205$^{***}$ & 0.188$^{***}$ \\
Constant & 18.988$^{***}$ & 1.765$^{***}$ & $-$4.737$^{***}$ \\ luminex\_samples & $-$0.279 & $-$0.026 & 0.058 \\
Constant & 19.077$^{***}$ & 1.751$^{***}$ & $-$4.712$^{***}$ \\
\hline \\[-1.8ex] \hline \\[-1.8ex]
Observations & 162 & 162 & 162 \\ % Observations & 177 & 177 & 177 \\
R$^{2}$ & 0.764 & 0.872 & 0.864 \\ R$^{2}$ & 0.763 & 0.869 & 0.855 \\
Adjusted R$^{2}$ & 0.734 & 0.856 & 0.846 \\ Adjusted R$^{2}$ & 0.735 & 0.853 & 0.837 \\
Residual Std. Error (df = 143) & 0.567 & 0.066 & 0.074 \\ % Residual Std. Error (df = 157) & 0.548 & 0.065 & 0.073 \\
F Statistic (df = 18; 143) & 25.649$^{***}$ & 53.998$^{***}$ & 50.318$^{***}$ \\ % F Statistic (df = 19; 157) & 26.660$^{***}$ & 54.664$^{***}$ & 48.594$^{***}$ \\
\hline \hline
\hline \\[-1.8ex] \hline \\[-1.8ex]
\textit{Note:} & \multicolumn{3}{r}{$^{*}$p$<$0.1; $^{**}$p$<$0.05; $^{***}$p$<$0.01} \\ \textit{Note:} & \multicolumn{3}{r}{$^{*}$p$<$0.1; $^{**}$p$<$0.05; $^{***}$p$<$0.01} \\

26
tables/causal_inference_treat.tex
View File

@ -1,23 +1,23 @@
% Table created by stargazer v.5.2.2 by Marek Hlavac, Harvard University. E-mail: hlavac at fas.harvard.edu % Table created by stargazer v.5.2.2 by Marek Hlavac, Harvard University. E-mail: hlavac at fas.harvard.edu
% Date and time: Fri, Jul 23, 2021 - 12:30:08 PM % Date and time: Fri, Aug 13, 2021 - 04:48:45 PM
\begin{tabular}{@{\extracolsep{5pt}}lccc} \begin{tabular}{@{\extracolsep{5pt}}lccc}
\\[-1.8ex]\hline \\[-1.8ex]\hline
\hline \\[-1.8ex] \hline \\[-1.8ex]
& \multicolumn{3}{c}{\textit{Dependent variable:}} \\ % & \multicolumn{3}{c}{\textit{Dependent variable:}} \\
\cline{2-4} % \cline{2-4}
\\[-1.8ex] & log(Fold Change) & \ptmemp{} & \dpthp{} \\ \\[-1.8ex] & log(Fold Change) & \ptmemp{} & \dpthp{} \\
\\[-1.8ex] & (1) & (2) & (3)\\ % \\[-1.8ex] & (1) & (2) & (3)\\
\hline \\[-1.8ex] \hline \\[-1.8ex]
Activation Method [DMS] & 0.903$^{***}$ & 0.048$^{*}$ & 0.011 \\ Activation Method [DMS] & 0.840$^{***}$ & 0.060$^{***}$ & 0.007 \\
Bioreactor [Grex] & $-$1.623$^{***}$ & $-$0.277$^{***}$ & 0.242$^{***}$ \\ Bioreactor [Grex] & $-$1.676$^{***}$ & $-$0.262$^{***}$ & 0.242$^{***}$ \\
Constant & 2.555$^{***}$ & 0.309$^{***}$ & $-$0.378$^{***}$ \\ Constant & 2.640$^{***}$ & 0.288$^{***}$ & $-$0.376$^{***}$ \\
\hline \\[-1.8ex] \hline \\[-1.8ex]
Observations & 162 & 162 & 162 \\ % Observations & 177 & 177 & 177 \\
R$^{2}$ & 0.440 & 0.317 & 0.177 \\ R$^{2}$ & 0.437 & 0.292 & 0.179 \\
Adjusted R$^{2}$ & 0.433 & 0.308 & 0.167 \\ Adjusted R$^{2}$ & 0.431 & 0.284 & 0.169 \\
Residual Std. Error (df = 159) & 0.827 & 0.144 & 0.172 \\ % Residual Std. Error (df = 174) & 0.803 & 0.143 & 0.165 \\
F Statistic (df = 2; 159) & 62.589$^{***}$ & 36.884$^{***}$ & 17.111$^{***}$ \\ % F Statistic (df = 2; 174) & 67.576$^{***}$ & 35.945$^{***}$ & 18.937$^{***}$ \\
\hline \hline
\hline \\[-1.8ex] \hline \\[-1.8ex]
\textit{Note:} & \multicolumn{3}{r}{$^{*}$p$<$0.1; $^{**}$p$<$0.05; $^{***}$p$<$0.01} \\ \textit{Note:} & \multicolumn{3}{r}{$^{*}$p$<$0.1; $^{**}$p$<$0.05; $^{***}$p$<$0.01} \\
\end{tabular} \end{tabular}

2
tex/thesis.tex
View File

@ -4666,6 +4666,8 @@ The code is available here: \url{https://github.gatech.edu/ndwarshuis3/mdma}.
\newcommand{\ligs}{\textit{ligands}} \newcommand{\ligs}{\textit{ligands}}
\newcommand{\rcps}{\textit{receptors}} \newcommand{\rcps}{\textit{receptors}}
% TODO make notation consistent
To model binding kinetics of either \gls{stp} or \glspl{mab} (here called To model binding kinetics of either \gls{stp} or \glspl{mab} (here called
\ligs{}), each microcarrier was assumed to be a porous sphere with a given \ligs{}), each microcarrier was assumed to be a porous sphere with a given
number of binding sites for the \ligs{} (here called \rcps{}). The \rcp{}/\lig{} number of binding sites for the \ligs{} (here called \rcps{}). The \rcp{}/\lig{}