A graph-based approach to analyze flux-balanced pathways in metabolic networks. (March 2018)

• Record Type: Journal Article
• Authors: Arabzadeh, Mona; Saheb Zamani, Morteza; Sedighi, Mehdi; Marashi, Sayed-Amir
• Is Part Of: Bio systems. Volume 165(2018)
• Page Start: 40
• Page End: 51
• Publication Date: 2018-03
• Subjects: Elementary flux mode (EFM) -- Graph data model -- Metabolic network; Biological systems -- Periodicals; Biology -- Periodicals; Biology -- Periodicals; Evolution -- Periodicals; Biologie -- Périodiques; Évolution -- Périodiques; 570
• DOI: 10.1016/j.biosystems.2017.12.001
• Languages: English
• ISSNs: 0303-2647

Abstract

Abstract: An elementary flux mode (EFM) is a pathway with minimum set of reactions that are functional in steady-state constrained space. Due to the high computational complexity of calculating EFMs, different approaches have been proposed to find these flux-balanced pathways. In this paper, an approach to find a subset of EFMs is proposed based on a graph data model. The given metabolic network is mapped to the graph model and decisions for reaction inclusion can be made based on metabolites and their associated reactions. This notion makes the approach more convenient to categorize the output pathways. Implications of the proposed method on metabolic networks are discussed.