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Briefings in Bioinformatics 2005 6(1):86-97; doi:10.1093/bib/6.1.86
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© Henry Stewart Publications

Tutorial section

Tutorial section: There is no silver bullet — a guide to low-level data transforms and normalisation methods for microarray data

David P. Kreil
Dept of Genetics, Univ. of Cambridge Downing Street, Cambridge CB2 3EH, UK Inference Group, Cavendish Laboratory, Univ. of Cambridge Madingley Road, Cambridge CB3 0HE, UK Tel: +44(0)1223 764107 Fax: +44(0)1223 333992 Email: D.Kreil{at}gen.cam.ac.uk

Roslin R. Russell
Dept of Genetics, Univ. of Cambridge Downing Street, Cambridge CB2 3EH, UK Email: Ros{at}gen.cam.ac.uk

ABSTRACT

To overcome random experimental variation, even for simple screens, data from multiple microarrays have to be combined. There are, however, systematic differences between arrays, and any bias remaining after experimental measures to ensure consistency needs to be controlled for. It is often difficult to make the right choice of data transformation and normalisation methods to achieve this end. In this tutorial paper we review the problem and a selection of solutions, explaining the basic principles behind normalisation procedures and providing guidance for their application.

Keywords: microarrays, experimental bias, data normalisation, low-level data transforms, microarray data analysis


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