ClustEx, a two-step method based on the new formulation, was developed and applied to identify the responsive gene modules of human umbilical vein endothelial cells (HUVECs) in inflammation and angiogenesis models by integrating the time-course microarray data and genome-wide PPI data. It shows better performance than several available module identification tools by testing on the reference responsive gene sets. Gene set analysis of KEGG pathways, GO terms and microRNAs (miRNAs) target gene sets further supports the ClustEx predictions.
Jin Gu , Zijian Ding (email@example.com)
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Jin Gu, Yang Chen, Shao Li, Yanda Li.
Identification of responsive gene modules by network-based gene clustering and extending: application to inflammation and angiogenesis.
BMC Systems Biology 2010, 4:47.