Analysis of Microarray Data

A microarray experiment consists of a number of distinct stages that need careful planning. These include the experimental design, the choice of array platform, the sources of the RNA and the number and type of replications to be considered.

The method of extracting and normalising raw data from microarray images will reflect the quality of the acquired data. Foreground and background fluorescent intensities must be extracted from the images, the intensity ratios normalised within and between slides and adjustments made for any systemic variations.

Processed intensity values are analysed using rigorous statistical methods. Complex microarray experiments can require custom statistical analysis methods to select for differentially expressed genes and having the assistance of a competent Biostatistician can be of great benefit in these situations.

A single, well designed microarray experiment will generate large amounts of biological data. Careful experimental design, rigorous statistical analysis and reliable bioinformatics resources are essential for realising the huge potential of microarrays.

The Adelaide Microarray Centre currently uses Partek Genomics Suite for the analysis of microarray data.