Title |
Investigating the Combinatory Effects of Biological Networks on Gene Co-expression
|
---|---|
Published in |
Frontiers in Physiology, May 2016
|
DOI | 10.3389/fphys.2016.00160 |
Pubmed ID | |
Authors |
Cheng Zhang, Sunjae Lee, Adil Mardinoglu, Qiang Hua |
Abstract |
Co-expressed genes often share similar functions, and gene co-expression networks have been widely used in studying the functionality of gene modules. Previous analysis indicated that genes are more likely to be co-expressed if they are either regulated by the same transcription factors, forming protein complexes or sharing similar topological properties in protein-protein interaction networks. Here, we reconstructed transcriptional regulatory and protein-protein networks for Saccharomyces cerevisiae using well-established databases, and we evaluated their co-expression activities using publically available gene expression data. Based on our network-dependent analysis, we found that genes that were co-regulated in the transcription regulatory networks and shared similar neighbors in the protein-protein networks were more likely to be co-expressed. Moreover, their biological functions were closely related. |
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