REF add some notes to myself

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Nathan Dwarshuis 2021-07-27 12:26:45 -04:00
parent afbb5fadbd
commit cd9f438d7d
1 changed files with 20 additions and 9 deletions

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@ -698,6 +698,7 @@ Therefore, the proposed microcarrier system should enable greater expansion and
better retention of memory phenotype compared to current bead-based methods.
\section{methods}
\subsection{dms functionalization}
\begin{figure*}[ht!]
@ -834,6 +835,8 @@ Cells on the \glspl{dms} were visualized by adding \SI{0.5}{\ul}
\product{\acd{45}-\gls{af647}}{\bl}{368538}, incubating for \SI{1}{\hour}, and
imaging on a spinning disk confocal microscope.
% METHOD mtt staining and interior quantification
\subsection{quantification of apoptosis using Annexin-V}
Apoptosis was quantified using \gls{anv} according to the manufacturer's
@ -905,6 +908,7 @@ Briefly, cells were washed once and stained with \product{biotinylated
BD Accuri. Readout was percent \gls{pe}+ cells as compared to secondary controls
(\gls{pe}-\gls{stp} with no \gls{ptnl}).
% TODO add BCMA-CAR stuff
\subsection{car plasmid and lentiviral transduction}
The anti-CD19-CD8-CD137-CD3z \gls{car} with the EF1$\upalpha$
@ -924,8 +928,6 @@ plates and incubated for another \SI{24}{\hour}. Cells and beads/\glspl{dms}
were removed from the retronectin plates using vigorous pipetting and
transferred to another 96 well plate wherein expansion continued.
\subsection{statistical analysis}
For 1-way \gls{anova} analysis with Tukey multiple comparisons test,
@ -947,7 +949,8 @@ lack-of-fit tests where replicates were present (to assess model fit in the
context of pure error). Statistical significance was evaluated at $\upalpha$ =
0.05.
% TODO add meta-analysis section
% METHOD add meta-analysis
% METHOD add Grex
\section{results}
@ -976,9 +979,8 @@ noted that the maximal \gls{mab} binding capacity occurred near \SI{50}{\nmol}
biotin input (which corresponded to \SI{2.5}{\nmol\per\mg\of{\dms}}) thus we
used this in subsequent processes.
% TODO add paragraph explaining the qc stuff
% TODO add paragraph explaining the reaction kinetics stuff
% RESULT add paragraph explaining the qc stuff
% RESULT add paragraph explaining the reaction kinetics stuff
% TODO flip the rows of this figure (right now the text is backward)
\begin{figure*}[ht!]
@ -1135,7 +1137,6 @@ cells after \SI{14}{\day} were on the interior surface of the \glspl{dms}
\label{fig:dms_flowchart}
\end{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!]
@ -1290,9 +1291,17 @@ showing that migration was likely independent of \gls{car} transduction.
\subcap{fig:car_production_migration}{Endpoint plot for transmigration assay
with \gls{anova}.} All data is from T cells expanded for \SI{14}{\day}.
}
\label{fig:dms_phenotype}
\label{fig:car_production}
\end{figure*}
% FIGURE bcma results
\subsection{DMSs efficiently expand T cells in Grex bioreactors}
% FIGURE grex
% FIGURE luminex
% FIGURE grex + car
\subsection{DMSs do not leave antibodies attached to cell product}
We asked if \glspl{mab} from the \glspl{dms} detached from the \gls{dms} surface
@ -1625,6 +1634,8 @@ provide these benefits.
\subsection{DOE shows optimal conditions for expanded potent T cells}
% TABLE luminex panel used
% TODO this plots proportions look dumb
\begin{figure*}[ht!]
\begingroup
@ -1699,7 +1710,7 @@ provide these benefits.
\label{fig:doe_responses}
\end{figure*}
% TODO add DOE regression tables
% TABLE DOE regression results
% TODO this section header sucks
\subsection{AI modeling reveals highly predictive species}