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Reverse Engineering of Genome-wide Gene Regulatory Networks from Gene Expression Data

[ Vol. 16 , Issue. 1 ]

Author(s):

Zhi-Ping Liu   Pages 3 - 22 ( 20 )

Abstract:


Transcriptional regulation plays vital roles in many fundamental biological processes. Reverse engineering of genome-wide regulatory networks from high-throughput transcriptomic data provides a promising way to characterize the global scenario of regulatory relationships between regulators and their targets. In this review, we summarize and categorize the main frameworks and methods currently available for inferring transcriptional regulatory networks from microarray gene expression profiling data. We overview each of strategies and introduce representative methods respectively. Their assumptions, advantages, shortcomings, and possible improvements and extensions are also clarified and commented.

Keywords:

Gene expression data, Genome-wide inference, Computational model, Transcriptional regulatory network, Reverse engineering.

Affiliation:

Department of Biomedical Engineering, Shandong University, Jinan, Shandong 250061, China.

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