Parameter estimation with interval algebra for JAK/STAT signal transduction pathway = 구간 대수를 이용한 JAK/STAT 신호 전달 경로의 매개 변수 추정

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Computers have been widely used for simulation of kinetics of biochemical reactions. In the process of modeling the biological system and understanding the dynamical mechanisms, parameter estimation plays a key role. Ordinary differential equation is most often used as the tool for quantitative simulation. Various numerical optimization methods exists, and are applied to the parameter estimation problem, mainly including direct search methods, Newton methods, stochastic methods and deterministic methods. There methods are limited on the number of the parameters, and generally requires numerous times of simulations to get the (local/global) optimum. We propose in this paper a parameter estimation method based on ODE simulation with interval variables and parameters. Genetic algorithm is adopted for optimization, and a stepwise refinement scheme is devised to find the parameter interval with a desired size. The method is tested on a simple model of JAK-STAT pathway, successful estimation is achieved. We also applied the method for a model of JAK-STAT pathway describing the mechanism of MPD, by designing an objective function depending on limited information. The results show satisfactory correspondence to the reported observations from literature.
Advisors
Lee, Do-Heonresearcher이도헌researcher
Description
한국과학기술원 : 바이오및뇌공학과,
Publisher
한국과학기술원
Issue Date
2007
Identifier
268810/325007  / 020054341
Language
eng
Description

학위논문(석사) - 한국과학기술원 : 바이오및뇌공학과, 2007. 8, [ iv, 31 p. ]

Keywords

Parameter Estimation; JAK/STAT; Interval Algebra; 매개 변수 추정; JAK/STAT; 구간 대수; Parameter Estimation; JAK/STAT; Interval Algebra; 매개 변수 추정; JAK/STAT; 구간 대수

URI
http://hdl.handle.net/10203/27141
Link
http://library.kaist.ac.kr/search/detail/view.do?bibCtrlNo=268810&flag=dissertation
Appears in Collection
BiS-Theses_Master(석사논문)
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