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Genome Biol. 2004;5(8):R60. Epub 2004 Jul 30.

Model selection and efficiency testing for normalization of cDNA microarray data.

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  • 1Institute for Theoretical Biology, Humboldt-Universität, Invalidenstrasse 43, 10115 Berlin, Germany. m.futschik@biologie.hu-berlin.de


In this study we present two novel normalization schemes for cDNA microarrays. They are based on iterative local regression and optimization of model parameters by generalized cross-validation. Permutation tests assessing the efficiency of normalization demonstrated that the proposed schemes have an improved ability to remove systematic errors and to reduce variability in microarray data. The analysis also reveals that without parameter optimization local regression is frequently insufficient to remove systematic errors in microarray data.

[PubMed - indexed for MEDLINE]
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