Custom-made CDF's probe set pairs

Description

Custom-made CDF's probe set pairs

Usage

data(CustomsTissue)
data(CustomsTissueMC)
data(CustomsTissue.noBl)

Format

These three data.frames contain data for the custom-made CDF's probe set pairs with Q75 >= 55. The pr and target columns hold the names of probe set X and Y, respectively. Column alSum contains the Q75 value of the alignment scores of X's reporters to the transcript of Y. The peCC column holds the pairs' Pearson correlation coefficient calculated on their expression intensities in the Tissue dataset (data originally from AtgenExpress Project).

CustomsTissue is data.frame that contains all custom-made CDF's probe set pairs with Q75 >= 55. CustomsTissueMC holds a subset of the pairs in CustomsTissue, namely those whose metacorrelation coefficient is not NA are included. For CustomsTissue.noBl, the pairs of CustomsTissue that align to each other with BLAST in at least one direction with an E-value smaller than 10^{-10} were omitted.

Author(s)

Tineke Casneuf tine@ebi.c.uk

References

Casneuf, Van de Peer and Huber (Submitted) ; 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. Nature Genetics, 37, 501-506.

See Also

AffysTissue

Examples

data(CustomsTissue)
data(CustomsTissueMC)
data(CustomsTissue.noBl)

## see also the vignette