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Experiment Setups and Parameter Estimation in Fluorescence Recovery After Photobleaching Experiments: A Review of Current Practice

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Model Based Parameter Estimation

Part of the book series: Contributions in Mathematical and Computational Sciences ((CMCS,volume 4))

Abstract

Fluorescence Recovery After Photobleaching (FRAP) is a popular and versatile family of methods used to estimate mobility and reaction parameters in cellular systems. Part of an area containing a fluorescently labeled species is bleached using a laser, and the effect of the perturbation of the spatial concentration profile of the fluorescent species is monitored. Subsequently, the collected data is reconciled with a model of the dynamics, thus yielding estimates for the parameters of interest. While originally devised to elucidate transport parameters, it was soon extended to the estimation of reaction rates, and is also used nowadays to answer a variety of questions on the organization of cellular systems.In this chapter, we review a variety of different approaches, classifying them according to the sources of uncertainty that are addressed or ignored, and the type of parameter that they attempt to estimate. We would like to highlight the importance of the general methodology as a tool that can be widely applied to a large number of situations.

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Author information

Authors and Affiliations

  1. Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, 69120, Heidelberg, Germany

    J. Beaudouin & Roland Eils

  2. Interdisciplinary Center for Scientific Computing, Im Neuenheimer Feld 368, 69123, Heidelberg, Germany

    Mario S. Mommer & Hans Georg Bock

  3. Department for Bioinformatics and Functional Genomics, Institute for Pharmacy and Molecular Biotechnology (IPMB), and Bioquant, Heidelberg University, Heidelberg, Germany

    Roland Eils

Authors
  1. J. Beaudouin
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  2. Mario S. Mommer
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  3. Hans Georg Bock
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  4. Roland Eils
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Corresponding authors

Correspondence to J. Beaudouin or Mario S. Mommer .

Editor information

Editors and Affiliations

  1. Interdisciplinary Center for Scientific, Computing (IWR), Heidelberg University, Im Neuenheimer Feld 368, Heidelberg, 69120, Germany

    Hans Georg Bock

  2. Institute for Applied Mathematics, Heidelberg University, Im Neuenheimer Feld 294, Heidelberg, 69120, Germany

    Thomas Carraro

  3. Interdisciplinary Center for Scientific, Computing (IWR), Heidelberg University, Im Neuenheimer Feld 368, Heidelberg, 69120, Germany

    Willi Jäger

  4. Interdisciplinary Center for, Scientific Computing (IWR), Heidelberg University, Im Neuenheimer Feld 368, Heidelberg, 69120, Germany

    Stefan Körkel

  5. Institute for Applied Mathematics, Heidelberg University, Im Neuenheimer Feld 293, Heidelberg, 69120, Germany

    Rolf Rannacher

  6. Interdisciplinary Center for Scientific, Computing (IWR), Heidelberg University, Im Neuenheimer Feld 368, Heidelberg, 69120, Germany

    Johannes P. Schlöder

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Beaudouin, J., Mommer, M.S., Bock, H.G., Eils, R. (2013). Experiment Setups and Parameter Estimation in Fluorescence Recovery After Photobleaching Experiments: A Review of Current Practice. In: Bock, H., Carraro, T., Jäger, W., Körkel, S., Rannacher, R., Schlöder, J. (eds) Model Based Parameter Estimation. Contributions in Mathematical and Computational Sciences, vol 4. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-30367-8_7

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