Integrative Network Analysis Reveals Dynamic Functional Modules in Drosophila melanogaster Embryonic Development
Date Issued
2010
Date
2010
Author(s)
Wu, Yu-Sheng
Abstract
Embryonic development has been extensively studied, but the dynamics of its protein-protein interaction network remains elusive. As molecular networks represent the backbone of molecular activity within cells, integrative analysis of transcriptomic profiles in the context of protein interaction networks provides opportunities for understanding the molecular mechanism of diseases. While protein-protein interaction data constitute static network maps, integration of condition-specific co-expression information provides clues to the dynamic features of the networks. Here, we present an integrative network analysis approach that integrates gene expression profiles with protein-protein interaction and biological function annotations to elucidate molecular modules during developmental processes. Integrating time-series transcriptomic profiles and protein-protein interactome of Drosophila melanogaster, we obtained co-expressed protein interaction networks in different developmental stages during its embryonic development. Applying enrichment analysis for functional dyads and clustering analysis based on network properties or expression profiles, we identified functional modules in each stage and investigated their roles and expression dynamics across stages. In conclusion, this study enriches our understanding of the D. melanogaster developmental process and provides clues for further research.
Subjects
embryonic development
time-series
co-expression
protein-protein interaction
biological network
microarray
Drosophila
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