locking in updates

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youainti 4 years ago
parent 3b9082608a
commit ac6b74d5b4

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Subproject commit 9874f936fc6ef65a04c0e16e83c7fb90a5ae8812 Subproject commit 09d0faa84c30f0735b0a16a3159afd2d816e9296

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\graphicspath{{\subfix{Assets/img/}}} \graphicspath{{\subfix{Assets/img/}}}
\begin{document} \begin{document}
%Classes of data
% Trial Dynamics/snapshots
% Drugs on Market
% Market/Population Size
% Compounds, interactions
\subsection{Data Sources} \subsection{Data Sources}
The following are the data source I plan on using.
\subsubsection{Clinical Trials Data} \subsubsection{Clinical Trials Data}
%ClinicalTrials.gov %ClinicalTrials.gov
% Key features - brief description % Key features - brief description
% Snapshots
% Why is it being included % Why is it being included
% What specific data is used % What specific data is used
% Enrollment, status, duration, indication, compound
% Data Manipulations for each % Data Manipulations for each
% Normalized: Enrollment, duration
% Categorical-to dummies: status
% Linked: indication, compound
% counts: number of sponsor changes since start.
% Links to data % Links to data
\subsubsection{Drugs on Market} \subsubsection{Drugs on Market}
@ -22,7 +24,10 @@
% Key features % Key features
% Why is it being included % Why is it being included
% What specific data is used % What specific data is used
% compound, spl, marketing dates
% Data Manipulations for each % Data Manipulations for each
% Linked: compound, spl -> indication
% standardize start/end dates by getting a view: compound, dates, manufacturer.
% Links to data % Links to data
\subsubsection{Global Disease Burden Survey} \subsubsection{Global Disease Burden Survey}
@ -49,6 +54,6 @@
% Link Global disease burden to a generic indication registry % Link Global disease burden to a generic indication registry
% Link trial compounds a generic registry (MPT or whatever that was)? % Link trial compounds a generic registry (MPT or whatever that was)?
% Link SPL compounds to a generic registry % Link SPL compounds to a generic registry
% % Link Market data to SPLs
\end{document} \end{document}

@ -2,11 +2,59 @@
\graphicspath{{\subfix{Assets/img/}}} \graphicspath{{\subfix{Assets/img/}}}
\begin{document} \begin{document}
In September of 2019, the European Space Agency (ESA) released a tweet %% Describe goal
explaining that they had performed an appendicotomy in space using % Estimate probability distribution of normalized durations and conclusion statuses.
nothing more than radiation from the sun. % Explain why this answers questions well.
They are sad to announce that the patient died due to complications from % How do I propose estimating that?
exposure to the cold vaccum of space.
%%NOTATION
First, some notation:
\begin{itemize}
\item $t,i$ index trial and snapshot of the trial respectively.
\item $S_{it}$ : status (``Terminated'', ``Concluded'')
at the conclusion of the trial
\item $\tau_{it}$ : elapsed percentage of planned duration, i.e. the normalized elapsed duration.
\item $s_{it}$: current status variable(s) describing current trial status as one of:
``Recruiting'', ``Active, not recruiting'', or ``Suspended''
\item $X_{it}$: data describing the trial at the snapshot level
\begin{itemize}
\item number of sponsor changes so far
\item percentage currently enrolled of planned enrolled
\end{itemize}
\item $M_{t}$: data describing market conditions at the time of the snapshot.
\begin{itemize}
\item number of compounds approved for the same indication
\item total number of marketers approved for the same indication
\item number of marketers for this specific compound
\end{itemize}
\item $T_t$: Trial Level Data
\begin{itemize}
\item Indication or indication class
\item Sponsor Type
\end{itemize}
\end{itemize}
Other variables used when selecting trials to include as observations are:
\begin{itemize}
\item Trial Phase\footnote{
Conditioning on previous trials can be as simple as selecting only
phase 2 or phase 3 trials.
}.
\item Does the trial have a Data Monitoring Committee?
\item Are the compounds an FDA regulated drug?
\end{itemize}
The goal is to estimate the probability distribution of conclusion status and duration conditional on the active snapshot status.
\begin{align}
\pr{ t, S | X,M,T} = \sum_{S\in\{\text{Terminated},\text{Concluded}\}} \pr{t|S,X,M,T} \pr{S|X,M,T}
\end{align}
Note how this has two component parts:
\begin{itemize}
\item The survival probability portion $\pr{t|S,X,M,T}$
\item The conclusion status portion $\pr{S|X,M,T}$
\end{itemize}
\end{document} \end{document}

@ -18,3 +18,4 @@
%Math Operators %Math Operators
\DeclareMathOperator{\argmax}{argmax} \DeclareMathOperator{\argmax}{argmax}
\DeclareMathOperator{\argmin}{argmin} \DeclareMathOperator{\argmin}{argmin}
\newcommand{\pr}[1]{\ensuremath{\text{Pr}\left( #1 \right)}}

@ -1,9 +1,9 @@
\begin{tikzpicture} \begin{tikzpicture}
\begin{pgfonlayer}{nodelayer} \begin{pgfonlayer}{nodelayer}
\node [style=emptyBox] (0) at (-18.5, 4) {Compound Safety}; \node [style=emptyBox] (0) at (-18.5, 4) {Compound Safety};
\node [style=emptyBox] (1) at (-18.5, -3.5) {Compound Effectiveness}; \node [style=emptyBox] (1) at (-18.5, -3.5) {Compound Effecacy};
\node [style=Red Box] (3) at (-3.75, -3.5) {\begin{tabular}{l} Conclusion \\ $\bullet$ Status\\ $\bullet$ Duration \\ $\bullet$ Enrollment \end{tabular}}; \node [style=Red Box] (3) at (-3.5, -4.25) {\begin{tabular}{l} Conclusion State \\ $\bullet$ Status\\ $\bullet$ Duration \\ $\bullet$ Enrollment \end{tabular}};
\node [style=Red Box] (4) at (-2.75, 1) {\begin{tabular}{l} Snapshot \\ $\bullet$ Status\\ $\bullet$ Duration \\ $\bullet$ Enrollment \end{tabular}}; \node [style=Red Box] (4) at (-2, 1) {\begin{tabular}{l} Snapshot State \\ $\bullet$ Status\\ $\bullet$ Duration \\ $\bullet$ Enrollment \end{tabular}};
\node [style=Red Box] (5) at (3.25, -2) {Market Conditions}; \node [style=Red Box] (5) at (3.25, -2) {Market Conditions};
\node [style=Box] (6) at (-17.5, -5.5) {Sponsor Changes}; \node [style=Box] (6) at (-17.5, -5.5) {Sponsor Changes};
\node [style=Box] (7) at (-15.25, 0.25) {\begin{tabular}{l}Prior \\ Trials \end{tabular}}; \node [style=Box] (7) at (-15.25, 0.25) {\begin{tabular}{l}Prior \\ Trials \end{tabular}};
@ -11,9 +11,9 @@
\node [style=emptyBox] (10) at (3.25, -5.25) {Unobserved}; \node [style=emptyBox] (10) at (3.25, -5.25) {Unobserved};
\node [style=Box] (11) at (3.25, -6.25) {Observed: Control}; \node [style=Box] (11) at (3.25, -6.25) {Observed: Control};
\node [style=Red Box] (12) at (3.25, -7.25) {Observed: Of interest}; \node [style=Red Box] (12) at (3.25, -7.25) {Observed: Of interest};
\node [style=emptyBox] (13) at (-11, 4) {Adverse Events}; \node [style=emptyBox] (13) at (-11, 4) {Current Adverse Events};
\node [style=emptyBox] (14) at (-10.5, -1.5) {Measured Effectiveness}; \node [style=emptyBox] (14) at (-10.5, -1.5) {Measured Effectiveness};
\node [style=Box] (15) at (3.75, 1) {Disease Burden}; \node [style=Box] (15) at (4.75, 1) {Disease Burden};
\end{pgfonlayer} \end{pgfonlayer}
\begin{pgfonlayer}{edgelayer} \begin{pgfonlayer}{edgelayer}
\draw [style=RightArrow] (4) to (3); \draw [style=RightArrow] (4) to (3);

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