ADD inside carrier figure and phenotype figure

This commit is contained in:
Nathan Dwarshuis 2021-07-23 18:02:17 -04:00
parent 8ea9b8f4ca
commit f198eaba57
3 changed files with 38016 additions and 4 deletions

605
figures/dms_inside.svg Normal file

File diff suppressed because one or more lines are too long

After

Width:  |  Height:  |  Size: 646 KiB

37367
figures/dms_phenotypes.svg Normal file

File diff suppressed because one or more lines are too long

After

Width:  |  Height:  |  Size: 2.9 MiB

View File

@ -139,6 +139,8 @@
\newcommand{\subcap}[2]{\subref{#1}) #2} \newcommand{\subcap}[2]{\subref{#1}) #2}
\newcommand{\sigkey}{Significance test key: *p<0.1; **p < 0.05; ***p<0.01}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% ditto for environments % ditto for environments
@ -992,11 +994,32 @@ context of pure error). Statistical significance was evaluated at $\upalpha$ =
\label{fig:dms_cells} \label{fig:dms_cells}
\end{figure*} \end{figure*}
% 3-donor expansion figure % TODO add this to the methods section
% TODO double check the timing of this experiment (it might not be day 14)
% TODO provide the regression results and coefficients from this
\begin{figure*}[ht!]
\begingroup
\includegraphics{../figures/dms_inside.png}
\phantomsubcaption\label{fig:dms_inside_bf}
\phantomsubcaption\label{fig:dms_inside_regression}
\endgroup
\caption[A subset of T cells grow in interior of \glspl{dms}]
{A percentage of T cells grow in the interior of \glspl{dms}.
\subcap{fig:dms_inside_bf}{T cells stained dark with MTT after growing on
either coated or uncoated \glspl{dms} for 14 days visualized with
brightfield microscope.}
\subcap{fig:dms_inside_regression}{Linear regression performed on T cell
percentages harvested on the interior of the \glspl{dms} vs the initial
starting cell density.}
}
\label{fig:dms_inside}
\end{figure*}
\subsection{DMSs lead to greater expansion and memory and CD4+ phenotypes} \subsection{DMSs lead to greater expansion and memory and CD4+ phenotypes}
% TODO add significance tests to this
\begin{figure*}[ht!] \begin{figure*}[ht!]
\begingroup \begingroup
@ -1019,12 +1042,29 @@ context of pure error). Statistical significance was evaluated at $\upalpha$ =
\subcap{fig:dms_exp_mem}{\ptmem{} cells}, \subcap{fig:dms_exp_mem}{\ptmem{} cells},
\subcap{fig:dms_exp_cd4}{\pth{} cells}, \subcap{fig:dms_exp_cd4}{\pth{} cells},
\subcap{fig:dms_exp_mem4}{\ptmemh{} cells}, and \subcap{fig:dms_exp_mem4}{\ptmemh{} cells}, and
\subcap{fig:dms_exp_mem8}{\ptmemk{} cells} \subcap{fig:dms_exp_mem8}{\ptmemk{} cells}. \sigkey{}
} }
\label{fig:dms_exp} \label{fig:dms_exp}
\end{figure*} \end{figure*}
% phenotype flow plots % TODO this figure has weird proportions
\begin{figure*}[ht!]
\begingroup
\includegraphics{../figures/dms_phenotypes.png}
\phantomsubcaption\label{fig:dms_phenotype_mem}
\phantomsubcaption\label{fig:dms_phenotype_cd4}
\endgroup
\caption[Representative flow plots of \ptmem{} and \pth{} T cells]
{Representative flow plots of \ptmem{} and \pth{} T cells at day 14 of
expansion using either beads or \glspl{dms}. For three representative donor
samples, phenotypes are shown for \subcap{fig:dms_phenotype_mem}{\ptmem{}}
and \subcap{fig:dms_phenotype_cd4}{\pth}. Each population was also gated on
\cdp{3} T cells.
}
\label{fig:dms_phenotype}
\end{figure*}
\subsection*{DMSs can be used to produce functional CAR T cells} \subsection*{DMSs can be used to produce functional CAR T cells}