Estimation of kinetic rates of MAP kinase activation from experimental data

Research output: Chapter in Book/Report/Conference proceedingConference PaperResearchpeer-review

4 Citations (Scopus)

Abstract

Mathematical model is an important tool in systems biology to study the dynamics of biological systems inside the cell. One of the significant challenges in systems biology is the lack of kinetic rates that should be measured in experiments or estimated from experimental data. This work addresses this issue by using a genetic algorithm to estimate reaction rates related to the phosphorylation and dephosphorylation of MAP kinase (ERK) in the mitogen-activated protein (MAP) kinase pathway from biological measurements. In addition, we discuss the robustness of the mathematical model with regards to the variation of kinetic rates together with external noise due to environmental fluctuations. This has been proposed as an additional criterion to choose the estimate from the candidate parameter sets that are obtained from different implementations of the genetic algorithm.
Original languageEnglish
Title of host publicationProceedings 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS)
EditorsHeng Huang, Sumanth Yenduri, Zhongming Zhao
Place of PublicationUSA
PublisherIEEE, Institute of Electrical and Electronics Engineers
Pages457 - 462
Number of pages6
ISBN (Print)9780769537399
Publication statusPublished - 2009
EventInternational Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing 2009 - Shanghai China, USA
Duration: 1 Jan 2009 → …

Conference

ConferenceInternational Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing 2009
Abbreviated titleIJCBS
CityUSA
Period1/01/09 → …

Cite this

Tian, T. (2009). Estimation of kinetic rates of MAP kinase activation from experimental data. In H. Huang, S. Yenduri, & Z. Zhao (Eds.), Proceedings 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS) (pp. 457 - 462). USA: IEEE, Institute of Electrical and Electronics Engineers.
Tian, Tianhai. / Estimation of kinetic rates of MAP kinase activation from experimental data. Proceedings 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS). editor / Heng Huang ; Sumanth Yenduri ; Zhongming Zhao. USA : IEEE, Institute of Electrical and Electronics Engineers, 2009. pp. 457 - 462
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Tian, T 2009, Estimation of kinetic rates of MAP kinase activation from experimental data. in H Huang, S Yenduri & Z Zhao (eds), Proceedings 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS). IEEE, Institute of Electrical and Electronics Engineers, USA, pp. 457 - 462, International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing 2009, USA, 1/01/09.

Estimation of kinetic rates of MAP kinase activation from experimental data. / Tian, Tianhai.

Proceedings 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS). ed. / Heng Huang; Sumanth Yenduri; Zhongming Zhao. USA : IEEE, Institute of Electrical and Electronics Engineers, 2009. p. 457 - 462.

Research output: Chapter in Book/Report/Conference proceedingConference PaperResearchpeer-review

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AB - Mathematical model is an important tool in systems biology to study the dynamics of biological systems inside the cell. One of the significant challenges in systems biology is the lack of kinetic rates that should be measured in experiments or estimated from experimental data. This work addresses this issue by using a genetic algorithm to estimate reaction rates related to the phosphorylation and dephosphorylation of MAP kinase (ERK) in the mitogen-activated protein (MAP) kinase pathway from biological measurements. In addition, we discuss the robustness of the mathematical model with regards to the variation of kinetic rates together with external noise due to environmental fluctuations. This has been proposed as an additional criterion to choose the estimate from the candidate parameter sets that are obtained from different implementations of the genetic algorithm.

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Tian T. Estimation of kinetic rates of MAP kinase activation from experimental data. In Huang H, Yenduri S, Zhao Z, editors, Proceedings 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS). USA: IEEE, Institute of Electrical and Electronics Engineers. 2009. p. 457 - 462