Document Type
Journal Article
Department/Unit
Department of Mathematics
Title
Construction of gene networks with hybrid approach from expression profile and gene ontology
Language
English
Abstract
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. © 2009 IEEE.
Keywords
Bioinformatics, Gene ontology (GO), Gene regulatory network, Hybrid approach, Overlapping clustering
Publication Date
2010
Source Publication Title
IEEE Transactions on Information Technology in Biomedicine
Volume
14
Issue
1
Start Page
107
End Page
118
Publisher
Institute of Electrical and Electronics Engineers
DOI
10.1109/TITB.2009.2033056
Link to Publisher's Edition
ISSN (print)
10897771
ISSN (electronic)
15580032
Recommended Citation
Jing, Liping, Michael K. Ng, and Ying Liu. "Construction of gene networks with hybrid approach from expression profile and gene ontology." IEEE Transactions on Information Technology in Biomedicine 14.1 (2010): 107-118.