Book chapters

• E. Meijering, I. Smal, O. Dzyubachyk, J.-C. Olivo-Marin. Time-Lapse Microscopy Imaging. Microscope Image Processing, Q. Wu, F. Merchant, K. Castleman (eds.), Elsevier Academic Press, Burlington, MA, 2008, pp. 401-440 (Abstract, pdf)
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By their very nature, biological systems are dynamic, and a proper understanding of the cellular and molecular processes underlying living organisms can be obtained only by spatiotemporal imaging. Catalyzed by substantial improvements in optics hardware, electronic imaging sensors, and a wealth of fluorescent probes and labeling methods, light microscopy has matured to the point that it enables sensitive time-lapse imaging of cells and even single molecules. This chapter discusses four aspects of time-lapse microscopy imaging: image acquisition, image preprocessing, image analysis, and trajectory analysis, all viewed from an informatics perspective. It focuses on methodological rather than hardware or software issues, and gives examples of image analysis methods that have been used successfully for specific applications. The goal of this chapter is to prepare the reader to select methods intelligently.