CustomsTissue {XhybCasneuf} | R Documentation

## 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

[Package XhybCasneuf version 1.0.0 Index]