Authors
Rafael A Irizarry, Benjamin M Bolstad, Francois Collin, Leslie M Cope, Bridget Hobbs, Terence P Speed
Publication date
2003/2/15
Journal
Nucleic acids research
Volume
31
Issue
4
Pages
e15-e15
Publisher
Oxford University Press
Description
High density oligonucleotide array technology is widely used in many areas of biomedical research for quantitative and highly parallel measurements of gene expression. Affymetrix GeneChip arrays are the most popular. In this technology each gene is typically represented by a set of 11–20 pairs of probes. In order to obtain expression measures it is necessary to summarize the probe level data. Using two extensive spike‐in studies and a dilution study, we developed a set of tools for assessing the effectiveness of expression measures. We found that the performance of the current version of the default expression measure provided by Affymetrix Microarray Suite can be significantly improved by the use of probe level summaries derived from empirically motivated statistical models. In particular, improvements in the ability to detect differentially expressed genes are demonstrated.
Total citations
Scholar articles
RA Irizarry, BM Bolstad, F Collin, LM Cope, B Hobbs… - Nucleic acids research, 2003