From 2b780fa7b566ef9a2851521d54879864a6f86c08 Mon Sep 17 00:00:00 2001 From: ndwarshuis Date: Fri, 3 Sep 2021 19:23:39 -0400 Subject: [PATCH] ADD donor characteristics table --- tables/donor_chars.tex | 18 ++++++++++++++++++ tables/donor_phenotypes.tex | 18 ++++++++++++++++++ tex/thesis.tex | 36 +++++++++++++++++++++++++++++------- 3 files changed, 65 insertions(+), 7 deletions(-) create mode 100644 tables/donor_chars.tex create mode 100644 tables/donor_phenotypes.tex diff --git a/tables/donor_chars.tex b/tables/donor_chars.tex new file mode 100644 index 0000000..0f2211e --- /dev/null +++ b/tables/donor_chars.tex @@ -0,0 +1,18 @@ +\begin{tabular}{@{\extracolsep{5pt}} ccccccc} + \\[-1.8ex]\hline + \hline \\[-1.8ex] +ID & Demo & Gender & ABO Type & Age (years) & BMI (\si{\kg\per\m\squared}) & HLA-A2 Present \\ + \hline \\[-1.8ex] +4 & AA & M & NA & 27 & 21.7 & FALSE \\ +24 & C & M & NA & 22 & 23.9 & FALSE \\ +29 & AA & M & NA & 40 & 20.9 & TRUE \\ +30 & AA & M & NA & 25 & 20.9 & TRUE \\ +309 & C/PI & F & APOS & 22 & 24.9 & FALSE \\ +338 & C & M & OPOS & 23 & 23.4 & TRUE \\ +338 & C & M & OPOS & 24 & 23.4 & TRUE \\ +358 & C & F & OPOS & 52 & 37.1 & TRUE \\ +397 & C & M & OPOS & 53 & 31.2 & FALSE \\ +512 & C & M & OPOS & 21 & 26.5 & FALSE \\ +592 & H & M & APOS & 21 & 31.8 & FALSE \\ + \hline \\[-1.8ex] +\end{tabular} \ No newline at end of file diff --git a/tables/donor_phenotypes.tex b/tables/donor_phenotypes.tex new file mode 100644 index 0000000..c0a7622 --- /dev/null +++ b/tables/donor_phenotypes.tex @@ -0,0 +1,18 @@ +\begin{tabular}{@{\extracolsep{5pt}} ccccccccc} + \\[-1.8ex]\hline + \hline \\[-1.8ex] +ID & \cd{3} & \cd{4} & \cd{8} & \cd{11c} & \cd{14} & \cd{16} & \cd{19} & \cd{56} \\ + \hline \\[-1.8ex] +4 & NA & 32.7 & 5.5 & NA & 12.3 & NA & 10.8 & 8.2 \\ +24 & 57.0 & 39.8 & 16.5 & NA & 12.7 & NA & 5.2 & 8.6 \\ +29 & NA & 35.3 & 6.8 & NA & 14.4 & NA & 3.0 & 8.2 \\ +30 & NA & 35.2 & 18.2 & NA & 15.1 & NA & 9.0 & 8.1 \\ +309 & 96.9 & 64.6 & 28.0 & 1.2 & 0.7 & 1.1 & 0.1 & 1.5 \\ +338 & 99.1 & 65.9 & 35.7 & 1.4 & 2.0 & 1.4 & 0.3 & 1.6 \\ +338 & 99.1 & 62.4 & 35.2 & 2.2 & 1.6 & 0.6 & 0.2 & 1.5 \\ +358 & 97.3 & 75.4 & 20.7 & 3.2 & 2.4 & 3.2 & 0.6 & 3.1 \\ +397 & 98.2 & 67.3 & 33.0 & 2.8 & 1.2 & 1.5 & 0.2 & 8.0 \\ +512 & 97.4 & 62.8 & 29.6 & 2.2 & 3.9 & 2.2 & 0.2 & 1.2 \\ +592 & 95.2 & 56.1 & 35.9 & 5.3 & 0.7 & 4.6 & 2.9 & 5.4 \\ + \hline \\[-1.8ex] +\end{tabular} \ No newline at end of file diff --git a/tex/thesis.tex b/tex/thesis.tex index fe99b28..06eefd8 100644 --- a/tex/thesis.tex +++ b/tex/thesis.tex @@ -20,6 +20,7 @@ \usepackage{setspace} \usepackage{listings} \usepackage{tocloft} +\usepackage{rotating} \hypersetup{ colorlinks=true, @@ -302,6 +303,7 @@ \newcommand{\amcd}[1]{\antim{\cd{#1}}} \newcommand{\pos}[1]{#1+} \newcommand{\cdp}[1]{\pos{\cd{#1}}} +\newcommand{\pcd}[1]{\cdp{#1}~\si{\percent}} \newcommand{\cdn}[1]{\cd{#1}-} \newcommand{\ptmem}{\cdp{62L}\pos{CCR7}} \newcommand{\ptmemp}{\ptmem{}~\si{\percent}} @@ -2556,13 +2558,13 @@ the treatment parameters themselves. In addition to these treatment parameters, we also included covariates to improve the precision of our model. Among these were donor parameters including age, \gls{bmi}, demographic, and gender, as well as the initial viability and -CD4/CD8 ratio of the cryopreserved cell lots used in the experiments. We also -included the age of key reagents such as IL2, media, and the anti-aggregate -media used to thaw the T cells prior to activation. Each experiment was -performed by one of three operators, so this was included as a three-level -categorical parameter. Lastly, some of our experiments were sampled -longitudinally, so we included a boolean categorical to represented this -modification as removing conditioned media as the cell are expanding could +CD4/CD8 ratio of the cryopreserved cell lots used in the experiments +(\cref{tab:meta_donors}). We also included the age of key reagents such as IL2, +media, and the anti-aggregate media used to thaw the T cells prior to +activation. Each experiment was performed by one of three operators, so this was +included as a three-level categorical parameter. Lastly, some of our experiments +were sampled longitudinally, so we included a boolean categorical to represented +this modification as removing conditioned media as the cell are expanding could disrupt signaling pathways. \begin{table}[!h] \centering @@ -4891,6 +4893,26 @@ hosted using \gls{aws} using their proprietary Aurora implementation. The code is available here: \url{https://github.gatech.edu/ndwarshuis3/mdma}. +\chapter{META ANALYSIS DONORS}\label{sec:appendix_donors} + +\begin{table}[!h] + \caption{Donors used in meta-analysis} + \begin{subtable}[t]{\textwidth} \centering + \caption{characteristics} + \input{../tables/donor_chars.tex} + \phantomsubcaption\label{tab:meta_donors_chars} + \end{subtable} + + \bigskip + + \begin{subtable}[t]{\textwidth} \centering + \caption{phenotype (all in percents)} + \input{../tables/donor_phenotypes.tex} + \phantomsubcaption\label{tab:meta_donors_phenotypes} + \end{subtable} + \label{tab:meta_donors} +\end{table} + \chapter{BINDING KINETICS}\label{sec:appendix_binding} \newcommand{\lig}{\textit{ligand}}