Many biochemical reactions involve a stream of chemical reactants (ligand molecules) flowing over a surface to which other reactants (receptors) are confined. Scientists measure rate constants associated with these reactions  in an optical biosensor: an instrument in which ligand molecules are convected through a flow cell, over a surface on which receptors are immobilized. In applications such as DNA damage repair multiple simultaneous reactions occur on the surface of the biosensor. We quantify transport effects on such multiple-component reactions, which result in a nonlinear set of integrodifferential equations for the reacting species concentrations. In physically relevant parameter regimes, these integrodifferential equations further reduce to a nonlinear set of ordinary differential equations, which may be used to estimate rate constants from biosensor data. We verify our results with a semi-implicit finite difference algorithm .
Optical biosensors are often used to measure kinetic rate constants associated with chemical reactions. Such instruments operate in thesurface-volume configuration, in which ligand molecules are convected through a fluid-filled volume over a surface to which receptors are confined. Currently, scientists are using optical biosenors to measure the kinetic rate constants associated with DNA translesion synthesis--a process critical to DNA damage repair. Biosensor experiments to study this process involve multiple interacting components on the sensor surface. This multiple-component biosensor experiment is modeled with a set of nonlinear integrodifferential equations (IDEs). It is shown that in physically relevant asymptotic limits these equations reduce to a much simpler set of Ordinary Differential Equations (ODEs). To verify the validity of our ODE approximation, a numerical method for the IDE system is developed and studied. Results from the ODE model agree with simulations of the IDE model, rendering our ODE model useful for parameter estimation .
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Many biochemical reactions involve a stream of chemical reactants (ligand molecules) flowing over a surface to which other reactants (receptors) are confined. Scientists measure
Optical biosensors are often used to measure kinetic
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these reactions
chemical reactions. Such instruments operate in the
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surface-volume
A
configuration,
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an optical biosensor: an instrument in
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flow cell,
fluid-filled volume
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on
to
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immobilized. In applications such as DNA damage repair multiple simultaneous reactions occur on the surface of the biosensor. We quantify transport effects on such
confined. Currently, scientists are using optical biosenors to measure the kinetic rate constants associated with DNA translesion synthesis--a process critical to DNA damage repair. Biosensor experiments to study this process involve multiple interacting components on the sensor surface. This
R
reactions, which result in a nonlinear set of integrodifferential
biosensor experiment is modeled with a set of nonlinear integrodifferential equations (IDEs). It is shown that in physically relevant asymptotic limits these
D
for the reacting species concentrations. In physically relevant parameter regimes, these integrodifferential equations further
R
nonlinear set of ordinary differential equations, which may be used to estimate rate constants from biosensor data. We verify our results with a semi-implicit finite difference algorithm
much simpler set of Ordinary Differential Equations (ODEs). To verify the validity of our ODE approximation, a numerical method for the IDE system is developed and studied. Results from the ODE model agree with simulations of the IDE model, rendering our ODE model useful for parameter estimation