Example Data Sets for affylmGUI

  1. Estrogen Data
  2. Malaria Life-Cycle Data

1. Estrogen

If you want to start a new analysis in affylmGUI, as done in the worked example, you should create a working directory for this data set, download the Estrogen Data Set from Bioconductor and copy the CEL files from the data subdirectory of the Bioconductor estrogen package into your working directory. Also download "EstrogenTargets.txt" and put it in the same directory.

The other two files, "EstrogenArraysLoaded.lma" and "EstrogenPLMnormalize.lma" are binary (RData) files which can be loaded into affylmGUI using "Open" from the File menu, rather than "New".

2. Malaria Life-Cycle Data

The aim of this experiment is to study the evolution of gene expression throughout the life-cycle of the Malaria parasite, Plasmodium Falciparum. RNA is extracted at several key stages during the life-cycle: Early Ring, Late Ring, Early Trophozoite, Late Trophozoite, Early Schizogony, Late Schizogony and Merozoite. The experiment was performed by Elizabeth Winzeler's lab at The Scripps Research Institute in California.

The CEL files are available from http://carrier.gnf.org/publications/CellCycle and (thanks to Ken Simpson), the CDF package can be obtained from http://bioinf.wehi.edu.au/affylmGUI/malaria.

This example is documented at:

affylmGUI Home

Comments/Questions? Contact keith@wehi.edu.au.

Last modified: 23 June 2003