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Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data

Authors :
Reverter, A.
Barris, W.
Moreno-Snchez, N.
McWilliam, S.
Wang, Y. H.
Harper, G. S.
Lehnert, S. A.
Dalrymple, B. P.
Source :
Australian Journal of Experimental Agriculture; 2005, Vol. 45 Issue: 8 p821-829, 9p
Publication Year :
2005

Abstract

We propose a data-driven reverse engineering approach to isolate the components of a gene interaction and regulatory network. We apply this method to the construction of a network for bovine skeletal muscle. Key nodes in the network include muscle-specific genes and transcription factors. muscle-specific genes are identified from data mining the USA National Cancer Institute, Cancer Genome Anatomy Project database, while transcription factors are predicted by accurate function annotation. A total of 5 microarray studies spanning 78 hybridisations and 23 different experimental conditions provided raw expression data. A recently-reported analytical method based on multivariate mixed-model equations is used to compute gene co-expression measures across 624 genes. The resulting network included 102 genes (of which 40 were muscle-specific genes and 7 were transcription factors) that clustered in 7 distinct modules with clear biological interpretation.

Details

Language :
English
ISSN :
08161089
Volume :
45
Issue :
8
Database :
Supplemental Index
Journal :
Australian Journal of Experimental Agriculture
Publication Type :
Periodical
Accession number :
ejs7591994
Full Text :
https://doi.org/10.1071/EA05039