Reassessing design and analysis of two-colour microarray experiments using mixed effects models
Article first published online: 20 APR 2005
Copyright © 2005 John Wiley & Sons, Ltd.
Comparative and Functional Genomics
Volume 6, Issue 3, pages 123–131, April 2005
How to Cite
Rosa, G. J. M., Steibel, J. P. and Tempelman, R. J. (2005), Reassessing design and analysis of two-colour microarray experiments using mixed effects models. Comp Funct Genom, 6: 123–131. doi: 10.1002/cfg.464
- Issue published online: 20 APR 2005
- Article first published online: 20 APR 2005
- Manuscript Accepted: 3 FEB 2005
- Manuscript Received: 19 JAN 2005
- hierarchical replication;
- mixed models;
- experimental design;
- group comparison
Gene expression microarray studies have led to interesting experimental design and statistical analysis challenges. The comparison of expression profiles across populations is one of the most common objectives of microarray experiments. In this manuscript we review some issues regarding design and statistical analysis for two-colour microarray platforms using mixed linear models, with special attention directed towards the different hierarchical levels of replication and the consequent effect on the use of appropriate error terms for comparing experimental groups. We examine the traditional analysis of variance (ANOVA) models proposed for microarray data and their extensions to hierarchically replicated experiments. In addition, we discuss a mixed model methodology for power and efficiency calculations of different microarray experimental designs. Copyright © 2005 John Wiley & Sons, Ltd.