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Mathematical modeling of canonical and non-canonical NF-κB pathways in TNF stimulation

Ji, Bing; Zhang, Yao; Zhen, Changqing; Fagan, Michael J.; Yang, Qing

Authors

Bing Ji

Yao Zhang

Changqing Zhen

Qing Yang



Contributors

Abstract

Background and objective: NF-κB can be activated by the canonical and non-canonical pathways. These two pathways interplay via the TRAF1|NIK complex after stimulation by TNF. However existing mathematical models of two pathways are inadequate. In this context, an improved mathematical model is constructed to simulate these two pathways and their coupling stimulated by TNF. Methods: A schematic description of two NF-κB pathways and their relation after TNF stimulation is constructed at first. Then twenty-eight ordinary differential equations are utilized to build the mathematical model. Model equations are solved via the ordinary differential equation solver (ode23). Results: The proposed model firstly reconstructs the changes in concentrations of NF-κB pathway related biochemical factors with time, and further investigates the underlying mechanism of interaction between two pathways through the TRAF1|NIK complex after stimulation. Conclusions: The model is validated through good agreement between simulation results and published experimental observations. This study helps to well understand the canonical and non-canonical pathways and their interaction. It also provides a potential tool to investigate how the dysregulated pathways act in pathological conditions.

Citation

Ji, B., Zhang, Y., Zhen, C., Fagan, M. J., & Yang, Q. (2020). Mathematical modeling of canonical and non-canonical NF-κB pathways in TNF stimulation. Computer Methods and Programs in Biomedicine, 196, https://doi.org/10.1016/j.cmpb.2020.105677

Journal Article Type Article
Acceptance Date Jul 22, 2020
Online Publication Date Jul 30, 2020
Publication Date 2020-11
Deposit Date Aug 14, 2020
Publicly Available Date Jul 31, 2021
Journal Computer Methods and Programs in Biomedicine
Print ISSN 0169-2607
Electronic ISSN 1872-7565
Publisher Elsevier
Peer Reviewed Peer Reviewed
Volume 196
Article Number 105677
DOI https://doi.org/10.1016/j.cmpb.2020.105677
Keywords NF-κB; Canonical pathway; Non-canonical pathway; Coupling; Mathematical modeling
Public URL https://hull-repository.worktribe.com/output/3557688
Publisher URL https://www.sciencedirect.com/science/article/abs/pii/S0169260720315108?via%3Dihub
Additional Information This article is maintained by: Elsevier; Article Title: Mathematical modeling of canonical and non-canonical NF-κB pathways in TNF stimulation; Journal Title: Computer Methods and Programs in Biomedicine; CrossRef DOI link to publisher maintained version: https://doi.org/10.1016/j.cmpb.2020.105677; Content Type: article; Copyright: © 2020 Elsevier B.V. All rights reserved.