Parameter estimation of biological phenomena modeled by S-systems

An Extended Kalman filter approach

N. Meskin, Hazem Nounou, Mohamed Nounou, A. Datta, E. R. Dougherty

Research output: Chapter in Book/Report/Conference proceedingConference contribution

12 Citations (Scopus)

Abstract

Recent advances in high-throughput technologies for biological data acquisition have spurred a broad interest in the development of mathematical models for biological phenomena. S-systems, which offer a good compromise between accuracy and mathematical flexibility, are a promising framework for modeling the dynamical behavior of genetic regulatory networks (GRNs), as well as that of biochemical pathways. In the S-system modeling framework, the number of unknown parameters is much more than the number of metabolites and this makes the parameter estimation task a challenging one. In this paper, a new parameter estimation algorithm is developed based on the Extended Kalman filter (EKF) approach. It is first shown that the conventional EKF approach is not capable of estimating the unknown parameters of S-systems. To remedy this problem, a new iterative extended Kalman Filtering algorithm is developed in which the EKF algorithm is applied iteratively to the available noisy time profiles of the metabolites. The proposed estimation algorithm is applied to a generic branched pathway and the Cad system of E.coli. The simulation results demonstrate the effectiveness of the proposed scheme.

Original languageEnglish
Title of host publication2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011
Pages4424-4429
Number of pages6
DOIs
Publication statusPublished - 2011
Event2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011 - Orlando, FL, United States
Duration: 12 Dec 201115 Dec 2011

Other

Other2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011
CountryUnited States
CityOrlando, FL
Period12/12/1115/12/11

Fingerprint

S-system
Extended Kalman filters
Parameter estimation
Kalman Filter
Parameter Estimation
Estimation Algorithms
Unknown Parameters
Pathway
Metabolites
Extended Kalman Filtering
Genetic Regulatory Networks
Data Acquisition
Dynamical Behavior
System Modeling
Escherichia Coli
High Throughput
Flexibility
Mathematical Model
Escherichia coli
Data acquisition

ASJC Scopus subject areas

  • Control and Systems Engineering
  • Modelling and Simulation
  • Control and Optimization

Cite this

Meskin, N., Nounou, H., Nounou, M., Datta, A., & Dougherty, E. R. (2011). Parameter estimation of biological phenomena modeled by S-systems: An Extended Kalman filter approach. In 2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011 (pp. 4424-4429). [6160690] https://doi.org/10.1109/CDC.2011.6160690

Parameter estimation of biological phenomena modeled by S-systems : An Extended Kalman filter approach. / Meskin, N.; Nounou, Hazem; Nounou, Mohamed; Datta, A.; Dougherty, E. R.

2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011. 2011. p. 4424-4429 6160690.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Meskin, N, Nounou, H, Nounou, M, Datta, A & Dougherty, ER 2011, Parameter estimation of biological phenomena modeled by S-systems: An Extended Kalman filter approach. in 2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011., 6160690, pp. 4424-4429, 2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011, Orlando, FL, United States, 12/12/11. https://doi.org/10.1109/CDC.2011.6160690
Meskin N, Nounou H, Nounou M, Datta A, Dougherty ER. Parameter estimation of biological phenomena modeled by S-systems: An Extended Kalman filter approach. In 2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011. 2011. p. 4424-4429. 6160690 https://doi.org/10.1109/CDC.2011.6160690
Meskin, N. ; Nounou, Hazem ; Nounou, Mohamed ; Datta, A. ; Dougherty, E. R. / Parameter estimation of biological phenomena modeled by S-systems : An Extended Kalman filter approach. 2011 50th IEEE Conference on Decision and Control and European Control Conference, CDC-ECC 2011. 2011. pp. 4424-4429
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