diff --git a/figures/car_production.svg b/figures/car_cd19.svg
similarity index 52%
rename from figures/car_production.svg
rename to figures/car_cd19.svg
index c5f448a..f25cd04 100644
--- a/figures/car_production.svg
+++ b/figures/car_cd19.svg
@@ -8,7 +8,7 @@
version="1.1"
id="svg8"
inkscape:version="1.1 (c4e8f9ed74, 2021-05-24)"
- sodipodi:docname="car_production.svg"
+ sodipodi:docname="car_cd19.svg"
xmlns:inkscape="http://www.inkscape.org/namespaces/inkscape"
xmlns:sodipodi="http://sodipodi.sourceforge.net/DTD/sodipodi-0.dtd"
xmlns="http://www.w3.org/2000/svg"
@@ -277,15 +277,15 @@
inkscape:pageopacity="1"
inkscape:pageshadow="2"
inkscape:zoom="0.98994949"
- inkscape:cx="125.76399"
- inkscape:cy="272.23611"
+ inkscape:cx="125.25892"
+ inkscape:cy="271.22596"
inkscape:document-units="px"
inkscape:current-layer="layer1"
showgrid="true"
units="in"
inkscape:window-width="1920"
- inkscape:window-height="1060"
- inkscape:window-x="3840"
+ inkscape:window-height="1036"
+ inkscape:window-x="1920"
inkscape:window-y="20"
inkscape:window-maximized="0"
inkscape:pagecheckerboard="0">
@@ -335,26 +335,6 @@
y="14.927912"
x="343.55347"
sodipodi:role="line">b.
- d.
- c.
- CAR-
- CAR+
- CD107a - APC
-
-
- K562-CD19
-
- K562-wt
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- 0
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- 10
-
-
- 2
-
-
-
-
-
-
-
-
-
-
-
- 10
-
-
- 3
-
-
-
-
-
-
-
-
-
-
-
- 10
-
-
- 4
-
-
-
-
-
-
-
-
-
-
-
- 10
-
-
- 5
-
-
-
-
-
-
-
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-
-
-
-
-
-
-
-
-
-
- 0
-
-
-
-
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-
-
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-
-
-
-
-
-
- 50
-
-
-
-
-
-
-
-
-
-
-
-
-
- 100
-
-
-
-
-
-
-
-
-
-
-
-
-
- 150
-
-
-
-
-
-
-
-
-
-
-
-
-
- 200
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- CD107a+
- 4.24%
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- 0
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- 10
-
-
- 2
-
-
-
-
-
-
-
-
-
-
-
- 10
-
-
- 3
-
-
-
-
-
-
-
-
-
-
-
- 10
-
-
- 4
-
-
-
-
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-
-
-
-
-
-
- 10
-
-
- 5
-
-
-
-
-
-
-
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-
-
-
-
-
-
-
-
-
-
- 0
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- 50
-
-
-
-
-
-
-
-
-
-
-
-
-
- 100
-
-
-
-
-
-
-
-
-
-
-
-
-
- 150
-
-
-
-
-
-
-
-
-
-
-
-
-
- 200
-
-
-
-
-
-
-
-
-
- CD107a+
- 16.7%
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- ●
- ●
- ●
- ●
- ●
- ●
- ●
- ●
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- 4.0%
- 8.0%
- 12.0%
- 16.0%
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- CAR−
- CAR+
-
-
-
-
-
-
-
-
-
- CD8+CD107A+ diff
- (CD19 − wt)
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- Method
-
-
-
-
-
-
- ●
-
-
-
-
-
- ●
-
-
-
-
-
- Bead
-
-
-
-
-
-
- DMS
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- SumSq.DFF-valuep-value
-
-
-
- Method0.000410.560.497CAR0.0260140.030.003Method:CAR0.000110.200.678Residuals0.00264
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- ●
- ●
- ●
- ●
- ●
- ●
- ●
- ●
- ●
- ●
- ●
- ●
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- 2.5%
- 5.0%
- 7.5%
- 10.0%
- 12.5%
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- CAR−
- CAR+
-
-
-
-
-
-
-
-
-
- Migration
- (background corrected)
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- Method
-
-
-
-
-
-
- ●
-
-
-
-
-
- ●
-
-
-
-
-
- Bead
-
-
-
-
-
-
- DMS
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
- e.
-
-
-
-
- SumSq.DFF-valuep-value
-
-
-
- CAR0.000712.330.165Method0.0052118.270.003CAR:Method0.001314.450.068Residuals0.00238
-
-
-
-
+
+
+
diff --git a/tex/thesis.tex b/tex/thesis.tex
index 2d7f1ad..0f52ca6 100644
--- a/tex/thesis.tex
+++ b/tex/thesis.tex
@@ -1937,7 +1937,6 @@ appeared that the \gls{mab} binding was quadratically related to biotin binding
critical to controlling the amount and \glspl{mab} and thus the amount of signal
the T cells receive downstream.
-% FIGURE combine this DOE figure into one interaction plot
\begin{figure*}[ht!]
\begingroup
@@ -2367,7 +2366,7 @@ generate \gls{car} T cells\cite{Tumaini2013, Lamers2014}. We added a
\SI{24}{\hour} transduction step on day 1 of the \SI{14}{\day} expansion to
insert an anti-CD19 \gls{car}\cite{Milone2009} and subsequently measured the
surface expression of the \gls{car} on day 14
-(\cref{fig:car_production_flow_pl,fig:car_production_endpoint_pl}). We noted
+(\cref{fig:car_cd19_flow,fig:car_cd19_endpoint}). We noted
that there was robust \gls{car} expression in over \SI{25}{\percent} of expanded
T cells, and there was no observable difference in \gls{car} expression between
beads and \glspl{dms}.
@@ -2380,7 +2379,7 @@ appearance of CD107a on CD8+ T cells. CD107a is found on the inner-surface of
cytotoxic granules and will emerge on the surface after cytotoxic T cells are
activated and degranulate. Indeed, we observed degranulation in T cells expanded
with both beads and \glspl{dms}, although not to an observably different degree
-(\cref{fig:car_production_flow_degran,fig:car_production_endpoint_degran}).
+(\cref{fig:car_degran_flow,fig:car_degran_endpoint}).
Taken together, these results indicated that the \glspl{dms} provide similar
transduction efficiency compared to beads.
@@ -2389,7 +2388,7 @@ for CCL21; since \glspl{dms} produced a larger percentage of naïve and memory T
cells (which have CCR7, the receptor for CCL21) we would expect higher migration
in \gls{dms}-expanded cells vs.\ their bead counterparts. Indeed, we noted a
significantly higher migration percentage for T cells grown using \glspl{dms}
-versus beads (\cref{fig:car_production_migration}). Interestingly, there also
+versus beads (\cref{fig:car_degran_migration}). Interestingly, there also
appeared to be a decrease in CCL21 migration between transduced and untransduced
T cells expanded using beads, but this interaction effect was only weakly
significant (p = 0.068). No such effect was seen for \gls{dms}-expanded T cells,
@@ -2399,25 +2398,38 @@ showing that migration was likely independent of \gls{car} transduction.
\begin{figure*}[ht!]
\begingroup
- \includegraphics{../figures/car_production.png}
- \phantomsubcaption\label{fig:car_production_flow_pl}
- \phantomsubcaption\label{fig:car_production_endpoint_pl}
- \phantomsubcaption\label{fig:car_production_flow_degran}
- \phantomsubcaption\label{fig:car_production_endpoint_degran}
- \phantomsubcaption\label{fig:car_production_migration}
+ \includegraphics{../figures/car_cd19.png}
+ \phantomsubcaption\label{fig:car_cd19_flow}
+ \phantomsubcaption\label{fig:car_cd19_endpoint}
+
+ \endgroup
+ \caption[\glspl{dms} lead to efficient CD19 transduction]
+ {\glspl{dms} lead to efficient CD19 transduction.
+ \subcap{fig:car_cd19_flow}{Representative flow cytometry plot for
+ transduced or untransduced T cells stained with \gls{ptnl}.}
+ \subcap{fig:car_cd19_endpoint}{Endpoint plots with \gls{anova} for
+ transduced or untransduced T cells stained with \gls{ptnl}.}
+ All data is from T cells expanded for \SI{14}{\day}.
+ }
+ \label{fig:car_production}
+\end{figure*}
+
+\begin{figure*}[ht!]
+ \begingroup
+
+ \includegraphics{../figures/car_degranulation.png}
+ \phantomsubcaption\label{fig:car_degran_flow}
+ \phantomsubcaption\label{fig:car_degran_endpoint}
+ \phantomsubcaption\label{fig:car_degran_migration}
\endgroup
\caption[\glspl{dms} produce functional \gls{car} T cells]
{\glspl{dms} produce functional \gls{car} T cells.
- \subcap{fig:car_production_flow_pl}{Representative flow cytometry plot for
- transduced or untransduced T cells stained with \gls{ptnl}.}
- \subcap{fig:car_production_endpoint_pl}{Endpoint plots with \gls{anova} for
- transduced or untransduced T cells stained with \gls{ptnl}.}
- \subcap{fig:car_production_flow_degran}{Representative flow plot for
+ \subcap{fig:car_degran_flow}{Representative flow plot for
degenerating T cells.}
- \subcap{fig:car_production_endpoint_degran}{Endpoint plots for transduced or
+ \subcap{fig:car_degran_endpoint}{Endpoint plots for transduced or
untransduced T cells stained with \cd{107a} for the degranulation assay.}
- \subcap{fig:car_production_migration}{Endpoint plot for transmigration assay
+ \subcap{fig:car_degran_migration}{Endpoint plot for transmigration assay
with \gls{anova}.} All data is from T cells expanded for \SI{14}{\day}.
}
\label{fig:car_production}