\HeaderA{stjude}{Microarry Data from St.Jude Children Research Hospital (USA)}{stjude}
\keyword{datasets}{stjude}
\begin{Description}\relax
Example for list-structure used by many functions in MACAT. It's based
on the gene expression data published by Yeoh et al. in 2002.[Yeoh et al. Classification, 
subtype discovery, and prediction of outcome in pediatric acute 
lymphoblastic leukemia by gene expression profiling. Cancer Cell. 
March 2002. 1: 133-143. The data has been preprocessed using 'vsn' on
probe level and the probes have been summed up using 'median polish'.
\end{Description}
\begin{Usage}
\begin{verbatim}data(stjude)\end{verbatim}
\end{Usage}
\begin{Format}\relax
List of class 'MACATData' with 6 components:
\describe{
\item[geneName:] Identifiers of genes/probe sets in expression data
\item[geneLocation:] Location of genes on their chromosome as distance from
5'end in base pairs Negative numbers denote genes on the antisense strand.
\item[chromosome:] Chromosome of the respective gene. Components 'geneName',
'geneLocation', and 'chromosome' are in the same order.
\item[expr:] expression matrix with rows = genes and columns = samples/patients
\item[labels:] (disease) subtype of each sample, has length = number of columns
of expression matrix
\item[chip:] Identifier for Microarray used for the experiments (here for the
Affymetrix HG-U95av2 Oligonucleotide GeneChip)
}
\end{Format}
\begin{Source}\relax
Yeoh et al. Classification, 
subtype discovery, and prediction of outcome in pediatric acute 
lymphoblastic leukemia by gene expression profiling. Cancer Cell. 
March 2002. 1: 133-143.
\end{Source}
\begin{Examples}
\begin{ExampleCode}
data(stjude)
summary(stjude)
\end{ExampleCode}
\end{Examples}

