Ion channel biosensors-part II: Dynamic modeling, analysis, and statistical signal processing

IEEE Transactions on Nanotechnology

Volumn 9, Issue 3, 2010, Pages 313-321

  Krishnamurthy, Vikram ^a   Monfared, Sahar Moradi ^a   Cornell, Bruce ^b  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^b SURGICAL DIAGNOSTICS PTY LTD   (Australia)

Author keywords

Chemical reaction kinetics; Dynamical model; Fluid transport dynamics; Ion channel biosensor; Singularly perturbed model; Statistical signal processing

Indexed keywords

ANALYTE CONCENTRATION; BIOSENSOR RESPONSE; CHEMICAL KINETICS; DYNAMIC MODELING; DYNAMICAL MODEL; ION CHANNEL; ION CHANNEL BIOSENSOR; NEUMANN AND DIRICHLET BOUNDARY CONDITIONS; SECOND-ORDER LINEAR SYSTEM; SINGULAR PERTURBATIONS; SINGULARLY PERTURBED MODEL; STATISTICAL SIGNAL PROCESSING; STEADY-STATE REGIME; TIME-SCALES;

ASSOCIATION REACTIONS; BOUNDARY CONDITIONS; DYNAMICS; IONS; LINEAR SYSTEMS; NEWTONIAN FLOW; NONLINEAR EQUATIONS; PERTURBATION TECHNIQUES; REACTION KINETICS; SIGNAL PROCESSING; TRANSPORT PROPERTIES;

BIOSENSORS;

EID: 77952662526     PISSN: 1536125X     EISSN: None     Source Type: Journal    
DOI: 10.1109/TNANO.2010.2041466     Document Type: Article

References (23)

1. B. Cornell, V. L. Braach-Maksvytis, L. G. King, P. D. Osman, B. Raguse, L. Wieczorek, and R. J. Pace, "A biosensor that uses ion-channel switches, " Nature, vol. 387, pp. 580-583, 1997.
2. H. K. Khalil, Nonlinear Systems, 3rd ed. Englewood Cliffs, NJ: Prentice-Hall, 2002.
3. G. Q. Dong, L. Jakobowski, M. A. J. Iafolla, and D. R. McMillen, "Simplification of stochastic chemical reaction models with fast and slow dynamics, " J. Biol. Phys., vol. 33, no. 1, pp. 67-95, Feb. 2007.
4. T. Mason, A. R. Pineda, C. Wofsy, and B. Goldstein, "Effective rate models for the analysis of transport-dependent biosensor data, " Math. Biosci., vol. 159, pp. 123-144, 1999.
5. D. A. Edwards, "Estimating rate constants in a convection-diffusion system with a boundary reaction, " IMA J. Appl. Math., vol. 63, pp. 89-112, 1999.
6. B. Goldstein, D. Coombs, X. He, A. R. Pineda, and C. Wofsy, "The influence of transport on the kinetics of binding to surface receptors: Application to cell and BIAcore, " J. Mol. Recognit., vol. 12, pp. 293-299, 1999.
7. B. Hille, Ionic Channels of Excitable Membranes, 3rd ed. Sunderland, MA: Sinauer Associates, Inc., 2001.
8. K. Cole, A Quantitiative Description of Membrane Current and Its Application to Conductance and Excitation in Nerve. Berkeley, CA: Univ. of California Press, 1968.
9. D. Lauffenburger and J. K. Linderman, Receptors-Models for Binding, Trafficking and Signaling. New York, Oxford, 1993.
10. S. Qian and H. H. Bau, "A mathematical model of lateral flow bioreactions applied to sandwich assays, " Anal. Biochem., vol. 322, pp. 89-98, 2003.
11. H. J. Kushner, Weak Convergence and Singularly Perturbed Stochastic Control and Filtering Problems. Boston, MA: Birkhauser, 1990.
12. R. W. Glaser, "Antigen-antibody binding and mass transportby convection and diffusion to a surface: A two-dimensional computer model of binding and dissociation kinetics, " Anal. Biochem., vol. 213, pp. 152-161, 1993.
13. D. G. Myszka, T. A. Morton, M. L. Doyle, and I. M. Chaiken, "Kinetic analysisof a protein antigen-antibody interaction limitedby mass transport on an optical biosensor, " Biophys. Chem., vol. 64, pp. 127-137, 1997.
14. M. Dehghan, "Numerical solution of the three-dimensional advection diffusion equation, " Appl. Math. Comput., vol. 150, pp. 5-19, 2004.
15. Y. Ephraim and N. Merhav, "Hidden Markov processes, " IEEE Trans. Inf. Theory, vol. 48, no. 6, pp. 1518-1569, Jun. 2002.
16. S. H. Chung, O. Anderson, and V. Krishnamurthy, Eds., Biological Membrane Ion Channels: Dynamics, Structure and Applications. New York: Springer-Verlag, 2007.
17. B. Cornell, "Membrane-based biosensors, " inOptical Biosensors: Present and Future, F. S. Ligler and C. A. R. Taitt, Eds. Amsterdam, The Netherlands: Elsevier, 2002, p. 457.
18. G. Woodhouse, L. King, L. Wieczorek, P. Osman, and B. Cornell, "The ion channel switch biosensor, " J. Mol. Recognit., vol. 12, no. 5, pp. 328-334, 1999.
19. R. A. Vijayendran, F. S. Ligler, and D. E. Leckband, "A computational reaction-diffusion model for analysis of transport-limited kinetics, " J. Anal. Chem., vol. 71, pp. 5405-5412, 1999.
20. J. P. Brody, P. Yager, R. E. Goldstein, and R. H. Austin, "Biotechnology at low Reynolds numbers, " Biophys. J., vol. 71, pp. 3430-3441, 1996.
21. V. Krishnamurthy, K. Luk, B. Cornell, and D. Martin, "Gramicidin ion channel based nano-biosensors: Construction, stochastic dynamical models and statistical detection algorithms, " IEEE Sens. J., vol. 7, no. 9, pp. 1281-1288, Sep. 2007.
22. C. J. Stankovic, S. H. Heinemann, and S. L. Schreiber, "Immobilizing the gate of a tartaric acid-gramicidin a hybrid channel molecule by rational design, " J. Amer. Chem. Soc., vol. 112, pp. 3702-3704, 1990.
23. R. Sauve and G. Szabo, "Interpretation of 1/f fluctuations inion conducting membranes, " J. Theor. Biol., vol. 113, pp. 501-516, Apr. 1985.