Construction of gene networks with hybrid approach from expression profile and gene ontology

Liping Jing*, Kwok Po NG, Ying Liu

*Corresponding author for this work

Research output: Contribution to journalJournal articlepeer-review

7 Citations (Scopus)


Gene regulatory networks have been long studied in model organisms as a means of identifying functional relationships among genes or their corresponding products. Despite many existing methods for genome-wide construction of such networks, solutions to the gene regulatory networks problem are however not trivial. Here, we present, a hybrid approach with gene expression profiles and gene ontology (HAEO). HAEO makes use of multimethods (overlapping clustering and reverse engineering methods) to effectively and efficiently construct gene regulatory networks from multisources (gene expression profiles and gene ontology). Application to yeast cell cycle dataset demonstrates HAEOs ability to construct validated gene regulatory networks, such as some potential gene regulatory pairs, which cannot be discovered by general inferring methods and identifying cycles (i.e., feedback loops) between genes. We also experimentally study the efficiency of building networks and show that the proposed method, HAEO is much faster than Bayesian networks method.

Original languageEnglish
Article number5272346
Pages (from-to)107-118
Number of pages12
JournalIEEE Transactions on Information Technology in Biomedicine
Issue number1
Publication statusPublished - Jan 2010

Scopus Subject Areas

  • Biotechnology
  • Computer Science Applications
  • Electrical and Electronic Engineering

User-Defined Keywords

  • Bioinformatics
  • Gene ontology (GO)
  • Gene regulatory network
  • Hybrid approach
  • Overlapping clustering


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