Effective rate models for the analysis of transport-dependent biosensor data.

Optical biosensors, including the BIACORE, provide an increasingly popular method for determining reaction rates of biomolecules. In a flow chamber, with one reactant immobilized on a chip on the sensor surface, a solution containing the other reactant (the analyte) flows through the chamber. The time course of binding of the reactants is monitored. Scientists using the BIACORE to understand biomolecular reactions need to be able to separate intrinsic reaction rates from the effects of transport in the biosensor. For a model to provide a useful basis for such an analysis, it must reflect transport accurately, while remaining simple enough to couple with a routine for estimating reaction rates from BIACORE data. Models have been proposed previously for this purpose, consisting of an ordinary differential equation with 'effective rate coefficients' incorporating reaction and transport parameters. In this paper we investigate both the theoretical basis and numerical accuracy of these and related models.

[1]  H. Berg,et al.  Physics of chemoreception. , 1977, Biophysical journal.

[2]  M. Schwartz,et al.  The adsorption of coliphage lambda to its host: effect of variations in the surface density of receptor and in phage-receptor affinity. , 1976, Journal of molecular biology.

[3]  R. Karlsson,et al.  Kinetic and Concentration Analysis Using BIA Technology , 1994 .

[4]  D G Myszka,et al.  Extending the range of rate constants available from BIACORE: interpreting mass transport-influenced binding data. , 1998, Biophysical journal.

[5]  M. Doyle,et al.  Kinetic analysis of a protein antigen-antibody interaction limited by mass transport on an optical biosensor. , 1997, Biophysical chemistry.

[6]  M L Yarmush,et al.  An analysis of transport resistances in the operation of BIAcore; implications for kinetic studies of biospecific interactions. , 1996, Molecular immunology.

[7]  L. Christensen.  Theoretical analysis of protein concentration determination using biosensor technology under conditions of partial mass transport limitation. , 1997, Analytical biochemistry.

[8]  C DeLisi,et al.  Effect of nonspecific forces and finite receptor number on rate constants of ligand--cell bound-receptor interactions. , 1981, Proceedings of the National Academy of Sciences of the United States of America.

[9]  B Goldstein,et al.  Transport effects on surface–volume biological reactions , 1999, Journal of mathematical biology.

[10]  O. Berg,et al.  On diffusion-controlled dissociation , 1978 .

[11]  L. A. Segel,et al.  The Quasi-Steady-State Assumption: A Case Study in Perturbation , 1989, SIAM Rev..

[12]  P. Yager,et al.  Biotechnology at low Reynolds numbers. , 1996, Biophysical journal.

[13]  M. Dembo,et al.  Approximating the effects of diffusion on reversible reactions at the cell surface: ligand-receptor kinetics. , 1995, Biophysical journal.

[14]  R W Glaser,et al.  Antigen-antibody binding and mass transport by convection and diffusion to a surface: a two-dimensional computer model of binding and dissociation kinetics. , 1993, Analytical biochemistry.

[15]  D. Myszka,et al.  Kinetic analysis of ligand binding to interleukin‐2 receptor complexes created on an optical biosensor surface , 1996, Protein science : a publication of the Protein Society.

[16]  A. Szabó,et al.  Role of diffusion in ligand binding to macromolecules and cell-bound receptors. , 1982, Biophysical journal.

[17]  Irene A. Stegun,et al.  Handbook of Mathematical Functions. , 1966 .

[18]  P. Schuck,et al.  Use of surface plasmon resonance to probe the equilibrium and dynamic aspects of interactions between biological macromolecules. , 1997, Annual review of biophysics and biomolecular structure.

[19]  B. K. Lok,et al.  Protein adsorption on crosslinked polydimethylsiloxane using total internal reflection fluorescence , 1983 .

[20]  J. Erickson,et al.  The effect of receptor density on the forward rate constant for binding of ligands to cell surface receptors. , 1987, Biophysical journal.