Cited by 172Gene Regulatory Network AnalysisNF-κB Signaling PathwaysOptimal Experimental Design Methods

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Experimental Design in Systems Biology, Based on Parameter Sensitivity Analysis Using a Monte Carlo Method: A Case Study for the TNFα-Mediated NF-κ B Signal Transduction Pathway

Cho, Kwang-Hyun, Shin, Sung-Young, Kolch, Walter, Wolkenhauer, Olaf·2003·SIMULATION

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Abstract

Mathematical modeling and dynamic simulation of signal transduction pathways is a central theme in systems biology and is increasingly attracting attention in the postgenomic era. The estimation of model parameters from experimental data remains a bottleneck for a major breakthrough in this area. This study’s aim is to introduce a new strategy for experimental design based on parameter sensitivity analysis. The approach identifies key parameters/variables in a signal transduction pathway model and can thereby provide experimental biologists with guidance on which proteins to consider for measurement. The article focuses on applying this approach to the TNFα-mediated NF-κB pathway, which plays an important role in immunity and inflammation and in the control of cell proliferation, differentiation, and apoptosis. A mathematical model of this pathway is proposed, and the sensitivity analysis of model parameters is illustrated for this model by employing the Monte Carlo method over a broad range of parameter values.

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Authors: Cho, K.-H., Shin, S.-Y., Kolch, W., & Wolkenhauer, O.
Affiliations: University of Ulsan (KR)
Beatson Institute for Cancer Research, Cancer Research UK, Beatson Laboratories, Switchback Road, Glasgow, G61 1BD, United Kingdom, Institute of Biomedical and Life Sciences, University of Glasgow University Avenue, Glasgow, G12 8QQ, United Kingdom
Department of Computer Science, University of Rostock, Albert Einstein Str. 21 18059 Rostock, Germany,
Corresponding author: Cho, Kwang-Hyun
ORCID: Cho, Kwang-Hyun
Shin, Sung-Young
Venue: SIMULATION
Publisher: SAGE Publications
Published: 2003-12
Volume: 79
Issue: 12
Pages: 726-739
ISSN: 0037-5497 (ISSN-L)
1741-3133
DOI: 10.1177/0037549703040943
OpenAlex: W2166565152
Cited by: 172
References: 31
Citations by year: 2026: 1 · 2025: 2 · 2024: 1 · 2023: 2 · 2022: 2 · 2021: 5 · 2020: 2 · 2019: 6 · 2018: 4 · 2016: 5 · 2015: 12 · 2014: 10 · 2013: 18 · 2012: 11
FWCI: 2.07
Type: journal article
Language: en
Open access: closed
Licence: journals.sagepub.com/page/policies/text-and-data-mining-license (tdm)
Locations: SIMULATION (publishedVersion)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › NF-κB Signaling Pathways
Social Sciences › Decision Sciences › Management Science and Operations Research › Optimal Experimental Design Methods
Keywords: experimental design, parameter sensitivity analysis, Monte Carlo methods, signaling pathways, TNF-α, NF-κB signaling, parameter estimation, model reduction, inflammation, immunity

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Experimental Design in Systems Biology, Based on Parameter Sensitivity Analysis Using a Monte Carlo Method: A Case Study for the TNFα-Mediated NF-κ B Signal Transduction Pathway

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