Course material

• Lecture
• Exercises

• image files for Exercise 3 (maQualityPlots)

Data

• The Integrin beta7 dataset
• The Agilent data of Exercise 7

Background material

• Interactive animation and wiki page on 2-color microarrays.
• Animation and wiki page on gene expression.

Literature

• Beta7 paper
• Overview paper on 2-color cDNA arrays, Duggan et al (1999)
• Experimental design of 2-color arrays, Churchill et al (2002)
• Normalization of 2-color arrays, Yang et al (2002)

Packages and related R documents

• The sma package is not available in the last release, you can download it from CRAN's archive: binary (Windows) source (MacOSx)
• Vignette of the marray package
• Guide for the arrayQuality package
• Paper on normalization of 2-color microarrays using the limma package