\HeaderA{CustomsTissue}{Custom-made CDF's probe set pairs}{CustomsTissue}
\methaliasA{CustomsTissue.noBl}{CustomsTissue}{CustomsTissue.noBl}
\aliasA{CustomsTissueMC}{CustomsTissue}{CustomsTissueMC}
\keyword{datasets}{CustomsTissue}
\begin{Description}\relax
Custom-made CDF's probe set pairs
\end{Description}
\begin{Usage}
\begin{verbatim}
data(CustomsTissue)
data(CustomsTissueMC)
data(CustomsTissue.noBl)
\end{verbatim}
\end{Usage}
\begin{Format}\relax
These three data.frames contain data for the custom-made CDF's probe set pairs with Q75 \textgreater{}= 55.
The \code{pr} and \code{target} columns hold the names of probe set X and Y, respectively. 
Column \code{alSum} contains the Q75 value of the alignment scores of X's 
reporters to the transcript of Y. 
The \code{peCC} column holds the pairs' Pearson correlation coefficient calculated 
on their expression intensities in the Tissue dataset (data originally from AtgenExpress Project).

\code{CustomsTissue} is data.frame that contains all custom-made CDF's probe set pairs 
with Q75 \textgreater{}= 55.
\code{CustomsTissueMC} holds a subset of the pairs in \code{CustomsTissue}, namely those
whose metacorrelation coefficient is not NA are included. 
For \code{CustomsTissue.noBl}, the pairs of \code{CustomsTissue} that align to each 
other with BLAST in at least one direction with an E-value smaller than
\eqn{10^{-10}}{} were omitted.
\end{Format}
\begin{Author}\relax
Tineke Casneuf \email{tine@ebi.c.uk}
\end{Author}
\begin{References}\relax
Casneuf, Van de Peer and Huber,
AtgenExpress data used: Schmid, M., Davison, T. S., Henz, S. R., Pape, U. J., Demar, M., Vingron, M. Schoelkopf, B. Weigel, D., and Lohmann, J. (2005) A gene expression map of Arabidopsis development. \emph{Nature Genetics}, 37, 501-506.
\end{References}
\begin{SeeAlso}\relax
\code{\LinkA{AffysTissue}{AffysTissue}}
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
data(CustomsTissue)
data(CustomsTissueMC)
data(CustomsTissue.noBl)

## see also the vignette
\end{ExampleCode}
\end{Examples}

