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BIOINFORMATICS
2007

Gene expression network analysis and applications to immunology

9 years 6 days ago
Gene expression network analysis and applications to immunology
We address the problem of using expression data and prior biological knowledge to identify differentially expressed pathways or groups of genes. Following an idea of Ideker et al. (2002), we construct a gene interaction network and search for high-scoring subnetworks. We make several improvements in terms of scoring functions and algorithms, resulting in higher speed and accuracy and easier biological interpretation. We also assign significance levels to our results, adjusted for multiple testing. Our methods are succesfully applied to three human microarray data sets, related to cancer and the immune system, retrieving several known and potential pathways. The method, denoted by the acronym GXNA (Gene eXpression Network Analysis) is implemented in software that is publicly available and can be used on virtually any microarray data set.
Serban Nacu, Rebecca Critchley-Thorne, Peter Lee,
Added 08 Dec 2010
Updated 08 Dec 2010
Type Journal
Year 2007
Where BIOINFORMATICS
Authors Serban Nacu, Rebecca Critchley-Thorne, Peter Lee, Susan Holmes
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