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BP: Fachverband Biologische Physik

BP 19: Poster VII

BP 19.14: Poster

Dienstag, 17. März 2020, 14:00–16:00, P2/3OG

Quantitative analysis of protein binding curves — •Lukas Refisch and Clemens Kreutz — Institute of Medical Biometry and Statistics, Faculty of Medicine and Medical Center - University of Freiburg, Germany

New measurement techniques for the quantification of reaction rate constants are continuously emerging. Usually, densely sampled time courses of labeled or unlabeled protein intensities are measured to observe a change from one equilibrium state which relaxes to another one. Traditional analysis approaches commonly assume simplifications of the underlying effects and select subsets of measured data to perform the analysis on. Instead, we propose using comprehensive ordinary differential equation (ODE) models that describe the entire protein binding process and can therefore be fitted to the full time series of obtained data.

We present advances for the analyses of two different experimental settings (i) microscale thermophoresis and (ii) reflectometric interferometry utilizing ODE models. They explicitly incorporate assumptions about the underlying processes and are fitted directly to the experimental data. These models contain several parameters that are estimated from data, some of them specifying time points at which experimental conditions change. The parameter estimates also contain information about spatial effects, like e.g. the flow of a solution across a microarray which is estimated from time course data. Our approach finds reliable characterization of binding curves and automates the data analysis, thus increasing the rate of data analysis considerably.