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Lubenia PVN, Mendoza ER, Lao AR. Reaction Network Analysis of Metabolic Insulin Signaling. Bull Math Biol 2022; 84:129. [PMID: 36168001 DOI: 10.1007/s11538-022-01087-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2022] [Accepted: 09/15/2022] [Indexed: 11/02/2022]
Abstract
Absolute concentration robustness (ACR) and concordance are novel concepts in the theory of robustness and stability within Chemical Reaction Network Theory. In this paper, we have extended Shinar and Feinberg's reaction network analysis approach to the insulin signaling system based on recent advances in decomposing reaction networks. We have shown that the network with 20 species, 35 complexes, and 35 reactions is concordant, implying at most one positive equilibrium in each of its stoichiometric compatibility class. We have obtained the system's finest independent decomposition consisting of 10 subnetworks, a coarsening of which reveals three subnetworks which are not only functionally but also structurally important. Utilizing the network's deficiency-oriented coarsening, we have developed a method to determine positive equilibria for the entire network. Our analysis has also shown that the system has ACR in 8 species all coming from a deficiency zero subnetwork. Interestingly, we have shown that, for a set of rate constants, the insulin-regulated glucose transporter GLUT4 (important in glucose energy metabolism), has stable ACR.
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Affiliation(s)
- Patrick Vincent N Lubenia
- Systems and Computational Biology Research Unit, Center for Natural Sciences and Environmental Research, 2401 Taft Avenue, Manila, 0922, Metro Manila, Philippines
| | - Eduardo R Mendoza
- Systems and Computational Biology Research Unit, Center for Natural Sciences and Environmental Research, 2401 Taft Avenue, Manila, 0922, Metro Manila, Philippines.,Department of Mathematics and Statistics, De La Salle University, 2401 Taft Avenue, Manila, 0922, Metro Manila, Philippines.,Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152, Martinsried, Munich, Germany
| | - Angelyn R Lao
- Systems and Computational Biology Research Unit, Center for Natural Sciences and Environmental Research, 2401 Taft Avenue, Manila, 0922, Metro Manila, Philippines. .,Department of Mathematics and Statistics, De La Salle University, 2401 Taft Avenue, Manila, 0922, Metro Manila, Philippines. .,Center for Complexity and Emerging Technologies, 2401 Taft Avenue, Manila, 0922, Metro Manila, Philippines.
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Arceo CPP, Jose EC, Marin-Sanguino A, Mendoza ER. Chemical reaction network approaches to Biochemical Systems Theory. Math Biosci 2015; 269:135-52. [DOI: 10.1016/j.mbs.2015.08.022] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2015] [Revised: 07/13/2015] [Accepted: 08/28/2015] [Indexed: 01/25/2023]
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