A hybrid EKF and switching PSO algorithm for joint state and parameter estimation of lateral flow immunoassay models

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Volumn 9, Issue 2, 2012, Pages 321-329

  Zeng, Nianyin ^a   Wang, Zidong ^b   Li, Yurong ^a   Du, Min ^a   Liu, Xiaohui ^b  

^a FUZHOU UNIVERSITY   (China)

^b BRUNEL UNIVERSITY   (United Kingdom)

Author keywords

constrained optimization; extended Kalman filtering; Lateral flow immunoassay; parameter estimation; switching particle swarm optimization

Indexed keywords

CONSTRAINED OPTIMIZATION PROBLEMS; DYNAMIC MODELING; EXTENDED KALMAN FILTERING; LATERAL FLOW IMMUNOASSAY; OBJECTIVE FUNCTIONS; PENALTY TERM; PHYSICAL CONSTRAINTS; PROBABILITY METHODS; PSO ALGORITHMS; STATE CONSTRAINTS; SYSTEM ANALYSIS AND DESIGN; SYSTEM STATE; UNCONSTRAINED OPTIMIZATION;

ALGORITHMS; CONSTRAINED OPTIMIZATION; ESTIMATION; EXTENDED KALMAN FILTERS; IMMUNOLOGY; PARTICLE SWARM OPTIMIZATION (PSO); SYSTEMS ANALYSIS;

PARAMETER ESTIMATION;

ALGORITHM; BIOLOGICAL MODEL; BIOLOGY; COMPUTER SIMULATION; IMMUNOASSAY; PROCEDURES; ARTICLE; METHODOLOGY;

ALGORITHMS; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; IMMUNOASSAY; MODELS, BIOLOGICAL;

EID: 84863011743     PISSN: 15455963     EISSN: None     Source Type: Journal    
DOI: 10.1109/TCBB.2011.140     Document Type: Article

References (45)

1. C. An, T. Yoshiki, G. Lee, and Y. Okada, "Evaluation of a Rapid Qualitative Prostate Specific Antigen Assay, the One Step PSATM Test" Cancer Letter, vol. 162, no. 2, pp. 135-139, 2001. (Pubitemid 32056280)
2. B.D.O. Anderson and J.B. Moore, Optimal Filtering. Prentice Hall, 1979.
3. http://commons.wikimedia.org/wiki/File:Lateral-Flow-Assay. jpg, 2005.
4. A. Corigliano and S. Mariani, "Parameter Identification in Explicit Structural Dynamics: Performance of the Extended Kalman Filter" Computer Methods in Applied Mechanics and Eng., vol. 193, pp. 3807-3835, 2004. (Pubitemid 39142602)
5. M. Du, Z. Fang, and H. Fei, "Application of Photoelectric Sensor to Quantitative Determination of Immunochro-Matographic Assay Strip" Chinese J. Scientific Instrument, vol. 36, no. 7, pp. 671-673, 2005.
6. K. Faulstich, R. Gruler, M. Eberhard, and K. Haberstroh, "Developing Rapid Mobile POC Systems. Part 1:Devices and Applications for Lateral-Flow Immunodiagnostics" IVD Technology, vol. 13, no. 6, pp. 47-53, 2007.
7. J. Gantelius, C. Hamsten, M. Neiman, J.M. Schwenk, A. Persson, and H. Andersson-Svahn, "A Lateral Flow Protein Microarray for Rapid Determination of Contagious Bovine Pleuropneumonia Status in Bovine Serum" J. Microbiol Methods, vol. 82, no. 1, pp. 11-18, 2010.
8. L. Huang, Y. Zhang, C. Xie, J. Qu, H. Huang, and X. Wang, "Research of Reflectance Photometer Based on Optical Absorption" Int'l J. Light and Electron Optics, vol. 121, no. 19, pp. 1725-1728, 2010.
9. S. Huang and D. Dissanayake, "Convergence and Consistency Analysis for Extended Kalman Filter Based SLAM" IEEE Trans. Robotics, vol. 23, no. 5, pp. 1036-1049, Oct. 2007. (Pubitemid 47577979)
10. V. Kadirkamanathan, K. Selvarajah, and P. Fleming, "Stability Analysis of the Particle Dynamics in Particle Swarm Optimizer" IEEE Trans. Evolutionary Computation, vol. 10, no. 3, pp. 245-255, June 2006. (Pubitemid 43821758)
11. J. Kaur, K. Singh, R. Boro, K. Thampi, M. Raje, and G. Varshney, "Immunochromatographic Dipstick Assay Format Using Gold Nanoparticles Labeled Protein-Hapten Conjugate for the Detection of Atrazine" Environmental Science and Technology, vol. 41, no. 14, pp. 5028-5036, 2007. (Pubitemid 47121103)
12. J. Kennedy and R. Eberhart, "Particle Swarm Optimization" Proc. IEEE Int'l Conf. Neural Network, pp. 1942-1948, 1995.
13. A.J. Krener, "The Convergence of the Extended Kalman Filter" Directions in Mathematical Systems Theory and Optimization, pp. 173-182, Springer, 2003.
14. L. Lang, W. Chen, B.R. Bakshi, P.K. Goel, and S. Ungarala, "Bayesian Estimation via Sequential Monte Carlo Sampling-Constrained Dynamic Systems" Automatica, vol. 3, pp. 1615-1622, 2007. (Pubitemid 47198207)
15. F. Lewis, L. Xie, and D. Popa, Optimal and Robust Estimation. CRC Press, 2007.
16. D. Li, S. Wei, H. Yang, Y. Li, and A. Deng, "A Sensitive Immunochromatographic Assay Using Colloidal Gold-Antibody Probe for Rapid Detection of Pharmaceutical Indomethacin in Water Samples" Biosensors and Bioelectronics, vol. 24, no. 7, pp. 2277-2280, 2009.
17. J. Li, A. Ouellette, L. Giovangrandi, D. Cooper, A. Ricco, and G. Kovacs, "Optical Scanner for Immunoassays with Up-Converting Phosphorescent Labels" IEEE Trans. Biomedical Eng., vol. 55, no. 5, pp. 1560-1571, May 2008. (Pubitemid 351550724)
18. Y. Li, N. Zeng, and M. Du, "Study on the Methodology of Quantitative Gold Immunochromatographic Strip Assay" Proc. Int'l Workshop Intelligent Systems and Application, pp. 182-185, 2010.
19. L. Ljung, System Identification: Theory for the User, second ed. Prentice-Hall, 1999.
20. R. Mendes, J. Kennedy, and J. Neves, "The Fully Informed Particle Swarm: Simpler, Maybe Better" IEEE Trans. Evolutionary Computation, vol. 8, no. 3, pp. 204-210, June 2004.
21. A. Mohamed, K. Schwarz, "Adaptive Kalman Filtering for INS/GPS" J. Geodesy, vol. 73, no. 4, pp. 193-203, 1999. (Pubitemid 29432784)
22. K. Parsopoulos and M. Vrahatis, "Particle Swarm Optimization Method for Constrained Optimization Problems" Proc. Euro-Int'l Symp. Computational Intelligence, pp. 214-220, 2002.
23. S. Qian and H. Haim, "A Mathematical Model of Lateral Flow Bioreactions Applied to Sandwich Assays" Analytical Biochemistry, vol. 322, no. 1, pp. 89-98, 2003. (Pubitemid 37188560)
24. S. Qian and H. Haim, "Analysis of Lateral Flow Biodetectors: Competitive Format" Analytical Biochemistry, vol. 326, no. 2, pp. 211-224, 2004. (Pubitemid 38293383)
25. M. Quach, N. Brunel, and F. d'Alché-Buc, "Estimating Parameters and Hidden Variables in Non-Linear State-Space Models Based on ODEs for Biological Networks Inference" Bioinformatics, vol. 23, no. 23, pp. 3209-3216, 2007. (Pubitemid 350187524)
26. C. Raphael and Y. Harley, Lateral Flow Immunoassay. Humana Press, 2008.
27. A. Ratnaweera, S.K. Halgamure, and H.C. Watson, "Self-Organizing Hierarchical Particle Swarm Optimizer with Time-Varying Acceleration Coefficients" IEEE Trans. Evolutionary Computation, vol. 8, no. 3, pp. 240-255, June 2004.
28. Y. Shi and R.C. Eberhart, "Empirical Study of Particle Swarm Optimization" Proc. IEEE Congress on Evolutionary Computation, pp. 1945-1950, 1999.
29. D. Simon and T. Chia, "Kalman Filtering with State Constrains: A Survey of Linear and Nonlinear Algorithms" IET Control Theory and Applications, vol. 4, no. 8, pp. 1303-1318, 2010.
30. D. Simon and D.L. Simon, "Aircraft Turbofan Engine Health Estimation Using Constrained Kalman Filtering" ASME J. Eng. for Gas Turbines and Power, vol. 127, no. 2, pp. 323-328, 2005. (Pubitemid 40716979)
31. N. Jamshidi and B. Palsson, "Formulating Genome-Scale Kinetic Models in the Post-Genome Era" Molecular Systems Biology, vol. 4, no. 171, 2008.
32. C. Sun, J. Zeng, and J. Pan, "An Improved Particle Swarm Optimization with Feasibility-Based Rules for Constrained Optimization Problems" Proc. 22nd Int'l Conf. Industrial, Eng. and Other Applications of Applied Intelligent Systems, pp. 202-211, 2009.
33. X. Sun, L. Jin, and M. Xiong, "Extended Kalman Filter for Estimation of Parameters in Nonlinear State-Space Models of Biochemical Networks" PLoS ONE, vol. 3, no. 11, p. e3758, 2008.
34. R. Tanaka, T. Yuhi, N. Nagatani, T. Endo, K. Kerman, and Y. Takamura, "A Novel Enhancement Assay for Immunochromatographic Test Strips Using Gold Nanoparticles" Analytical and Bioanalytical Chemistry, vol. 385, no. 8, pp. 1414-1420, 2006. (Pubitemid 44200016)
35. Y. Tang, Z. Wang, and J. Fang, "Parameters Identification of Unknown Delayed Genetic Regulatory Networks by a Switching Particle Swarm Optimization Algorithm" Expert Systems with Applications, vol. 38, pp. 2523-2535, 2011.
36. Y.G. Tang and X. Guan, "Parameter Estimation for Time-Delay Chaotic System by Particle Swarm Optimization" Chaos, Solitons and Fractals, vol. 42, no. 5, pp. 3132-3139, 2009.
37. Y. Valle, G. Venayagamoorthy, S. Mohagheghi, J. Hernandez, and R. Harley, "Particle Swarm Optimization: Basic Concepts, Variants and Applications in Power Systems" IEEE Trans. Evolutionary Computation, vol. 12, no. 2, pp. 171-195, Apr. 2008. (Pubitemid 351546693)
38. Z. Gao, T. Breikin, and H. Wang, "Reliable Observer-Based Control against Sensor Failures for Systems with Time Delays in Both State and Input" IEEE Trans. Systems Man and Cybernetics, Part A, vol. 38, no. 5, pp. 1018-1029, Sept. 2008.
39. Z. Gao, X. Shi, and S. Ding, "Fuzzy State/Disturbance Observer Design for T-S Fuzzy Systems with Application to Sensor Fault Estimation" IEEE Trans. Systems Man and Cybernetics, Part B, vol. 38, no. 3, pp. 875-880, June 2008. (Pubitemid 351796162)
40. Z. Gao, X. Dai, T. Breikin, and H. Wang, "Novel Parameter Identification by Using a High-Gain Observer with Application to a Gas Turbine Engine" IEEE Trans. Industrial Informatics, vol. 4, no. 4, pp. 271-279, Nov. 2008.
41. Z. Wang, X. Liu, Y. Liu, J. Liang, and V. Vinciotti, "An Extended Kalman Filtering Approach to Modeling Nonlinear Dynamic Gene Regulatory Networks via Short Gene Expression Time Series" IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 6, no. 3, pp. 410-419, July-Sept. 2009.
42. Z. Wang, F. Yang, D.W.C. Ho, S. Swift, A. Tucker, and X. Liu, "Stochastic Dynamic Modeling of Short Gene Expression Time Series Data" IEEE Trans. NanoBioscience, vol. 7, no. 1, pp. 44-55, Mar. 2008.
43. P. Yager, T. Edwards, E. Fu, K. Helton, K. Nelson, M.R. Tam, and B.H. Weigl, "Microfuidic Diagnostic Technologies for Global Public Health" Nature, vol. 442, pp. 412-418, 2006. (Pubitemid 44264785)
44. J. Yang, Y. Chen, J. Horng, and C. Kao, "Applying Family Competition to Evolution Strategies for Constrained Optimization" Proc. Sixth Int'l Conf. Evolutionary Programming VI, pp. 201-211, 1997. (Pubitemid 127053257)
45. N. Zeng, Z. Wang, Y. Li, M. Du, and X. Liu, "Inference of Nonlinear State-Space Models for Sandwich-Type Lateral Flow Immunoassay Using Extended Kalman Filtering" IEEE Trans. Biomedical Eng., vol. 58, no. 7, pp. 1959-1966, July 2011.