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Briefings in Bioinformatics Advance Access originally published online on March 7, 2006
Briefings in Bioinformatics 2006 7(2):166-177; doi:10.1093/bib/bbl002
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© The Author 2006. Published by Oxford University Press. For Permissions, please email: journals.permissions@oxfordjournals.org

Normalization and quantification of differential expression in gene expression microarrays

Christine Steinhoff and Martin Vingron

Corresponding author. Christine Steinhoff, Max Planck Institute for Molecular Genetics, Department of Computational Molecular Biology, Ihnestr 73, D-14195 Berlin, Germany. E-mail: steinhof{at}molgen.mpg.de

Array-based gene expression studies frequently serve to identify genes that are expressed differently under two or more conditions. The actual analysis of the data, however, may be hampered by a number of technical and statistical problems. Possible remedies on the level of computational analysis lie in appropriate preprocessing steps, proper normalization of the data and application of statistical testing procedures in the derivation of differentially expressed genes. This review summarizes methods that are available for these purposes and provides a brief overview of the available software tools.

Keywords: microarray, normalization, low-level analysis, differential gene expression


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