Identifying functional modules using MST-based weighted gene co-expression networks
Conference proceedings article
Authors/Editors
Strategic Research Themes
No matching items found.
Publication Details
Author list: Chanthaphan A., Prom-on S., Meechai A., Chan J.
Publisher: Hindawi
Publication year: 2009
Start page: 192
End page: 199
Number of pages: 8
ISBN: 9780769536569
ISSN: 0146-9428
eISSN: 1745-4557
Languages: English-Great Britain (EN-GB)
View in Web of Science | View on publisher site | View citing articles in Web of Science
Abstract
This paper proposes an effective method for identifying functional modules of the weighted gene coexpression network using a minimum spanning tree (MST) approach coupled with network neighborhood connectivity. The MST-based gene co-expression network was reconstructed to serve as the backbone of gene co-expression network. Highly connected hub genes were identified based on the connectivity of the backbone network. All sub-networks were extracted by expanding from the hub genes to their neighborhood genes. Finally, functional modules were identified by integrating subnetworks with similar gene expression profiles. We tested the method with both simulated and autism spectrum disorder microarray data sets. The results show that our approach is better in highlighting the hub genes and can effectively identify functional modules with highly enriched pathways. ฉ 2009 IEEE.
Keywords
Functional module, Hub genes, Minimum spanning tree, Scaled connectivity measures, Weighted gene co-expression network
Contact Information