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An increasingly common application of gene expression profile data is the reverse …
Biology Articles » Bioengineering » Comparative analysis of microarray normalization procedures: effects on reverse engineering gene networks
1Department of Biomedical Informatics, Columbia University, 622 West 168th Street, Vanderbilt Clinic 5th Floor and 2Center for Computational Biology and Bioinformatics, Columbia University, 1130 Saint Nicholas Avenue, New York, NY 10032, USA
An open access article: Bioinformatics 2007 23(13):i282-i288.
Motivation: An increasingly common application of gene expressionprofile data is the reverse engineering of cellular networks.However, common procedures to normalize expression profilesgenerated using the Affymetrix GeneChips technology were originallydeveloped for a rather different purpose, namely the accuratemeasure of differential gene expression between two or morephenotypes. As a result, current evaluation strategies lackcomprehensive metrics to assess the suitability of availablenormalization procedures for reverse engineering and, in general,for measuring correlation between the expression profiles ofa gene pair.
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