ath.metabolites: Example metabolite expression data from Arabidopsis Thaliana...

In ctl: Correlated Trait Locus Mapping

Example metabolite expression data from Arabidopsis Thaliana on 24 metabolites.

Description

Arabidopsis recombinant inbred lines by selfing. There are 162 lines, 24 phenotypes, and 117 markers on 5 chromosomes stored as a list with 3 matrices: genotypes, phenotypes, map

Usage

  data(ath.metabolites)

Format

Data stored in a list holding 3 matrices genotypes, phenotypes and map

Details

Arabidopsis recombinant inbred lines by selfing. There are 162 lines, 24 phenotypes, and 117 markers on 5 chromosomes.

Source

Part of the Arabidopsis RIL selfing experiment with Landsberg Erecta (Ler) and Cape Verde Islands (Cvi) with 162 individuals scored (with errors) at 117 markers. Dataset obtained from GBIC - Groningen BioInformatics Centre, University of Groningen.

References

• Keurentjes, J. J. and Fu, J. and de Vos, C. H. and Lommen, A. and Hall, R. D. and Bino, R. J. and van der Plas, L. H. and Jansen, R. C. and Vreugdenhil, D. and Koornneef, M. (2006), The genetics of plant metabolism. Nature Genetics. 38-7, 842–849.

• Alonso-Blanco, C. and Peeters, A. J. and Koornneef, M. and Lister, C. and Dean, C. and van den Bosch, N. and Pot, J. and Kuiper, M. T. (1998), Development of an AFLP based linkage map of Ler, Col and Cvi Arabidopsis thaliana ecotypes and construction of a Ler/Cvi recombinant inbred line population. Plant J. 14(2), 259–271.

Examples

  library(ctl)
  data(ath.metabolites)           # Arabidopsis thaliana dataset

  ath.metab$genotypes[1:5, 1:5]   # ath.metab is the short name
  ath.metab$phenotypes[1:5, 1:5]
  ath.metab$map[1:5, ]

ctl documentation built on Nov. 27, 2023, 5:09 p.m.