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- Title
Active module identification in intracellular networks using a memetic algorithm with a new binary decoding scheme.
- Authors
Dong Li; Zhisong Pan; Guyu Hu; Zexuan Zhu; Shan He
- Abstract
Background: Active modules are connected regions in biological network which show significant changes in expression over particular conditions. The identification of such modules is important since it may reveal the regulatory and signaling mechanisms that associate with a given cellular response. Results: In this paper, we propose a novel active module identification algorithm based on a memetic algorithm. We propose a novel encoding/decoding scheme to ensure the connectedness of the identified active modules. Based on the scheme, we also design and incorporate a local search operator into the memetic algorithm to improve its performance. Conclusion: The effectiveness of proposed algorithm is validated on both small and large protein interaction networks.
- Subjects
BINARY codes; BIOLOGICAL networks; PROTEIN-protein interactions; MATHEMATICAL connectedness; GENE expression
- Publication
BMC Genomics, 2017, Vol 18, p1
- ISSN
1471-2164
- Publication type
Article
- DOI
10.1186/s12864-017-3495-y