ATH.coord {eqtl}R Documentation

Data on probes coordinates

Description

Data for the physical coordinates of A. thaliana GST (probes).

Usage

data(ATH.coord)

Format

A data frame with 30334 observations on the following 4 variables representing GST genomic coordinates:

etrait.name
a factor with GST names as levels.
chr
an integer vector determining the chromosomes.
start
an integer vector determining the GST start location in base pair.
stop
an integer vector determining the GST stop location in base pair.

Details

These Gene Sequence Tags are used on the CATMA microarray. See references below. They link to the expression phenotypes measured on their related cross object (here, they decribes the seed10 object). Usually, all expression traits are not taken into account within a QTL analysis, therefore this list could contain more traits than the ones phenotyped within the cross object. On the other hand, every phenotype analysed must be found within ATH.coord data frame.

Source

Jean-Pierre Renou and Alain Lecharny (CATdb a Complete Arabidopsis Transcriptome database)(http://urgv.evry.inra.fr/CATdb)

References

Crowe M.L. et al., (2003) CATMA A complete Arabidopsis GST database. Nucleic Acids Res 31:156-158.

Examples

data(ATH.coord);

[Package eqtl version 1.0 Index]