Comparative analysis of microarray normalization procedures: effects on reverse engineering gene networks | Zendy

Wei Keat Lim | Zendy; Kai Wang | Zendy; Céline Lefèbvre | Zendy; Andrea Califano | Zendy

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Comparative analysis of microarray normalization procedures: effects on reverse engineering gene networks

Author(s) -

Wei Keat Lim,

Kai Wang,

Céline Lefèbvre,

Andrea Califano

Publication year - 2007

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btm201

Subject(s) - normalization (sociology) , reverse engineering , computer science , replicate , pairwise comparison , database normalization , data mining , cluster analysis , hierarchical clustering , benchmark (surveying) , computational biology , artificial intelligence , biology , statistics , mathematics , sociology , anthropology , geodesy , programming language , geography

An increasingly common application of gene expression profile data is the reverse engineering of cellular networks. However, common procedures to normalize expression profiles generated using the Affymetrix GeneChips technology were originally developed for a rather different purpose, namely the accurate measure of differential gene expression between two or more phenotypes. As a result, current evaluation strategies lack comprehensive metrics to assess the suitability of available normalization procedures for reverse engineering and, in general, for measuring correlation between the expression profiles of a gene pair.

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