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BP: Fachverband Biologische Physik
BP 31: Imaging
BP 31.6: Vortrag
Freitag, 30. März 2012, 11:00–11:15, H 1058
4D imaging: a versatile suite for image analysis — •Bhavna Rajasekaran1, Jean-Yves Tinevez2, Koichiro Uriu3, Guillaume Valentin1, Frank Jülicher3, and Andrew Oates1 — 1Max Planck Institute for Cell Biology and Genetics, Dresden, Germany — 2Institut Pasteur, Paris, France — 3Max Planck Institute for the Physics of Complex Systems, Dresden, Germany
Fluorescence microscopy can capture in vivo time-space visualization of cellular dynamics, changes in spatio-temporal pattern of gene expression within cellular structures, tissue growth and morphogenesis. Computational image analysis techniques serve to translate such image data into meaningful quantitative measurements that can further be analyzed and understood to draw precise description of a biological phenomena or allow hypothesis testing. Here, we demonstrate novel computationally efficient 3D nuclei segmentation algorithm based on image derivatives combined with semi-automated method for post rectification of segmented data to reliably extract individual cell identity and track cells over time based on nearest neighborhood for the developing pre-somitic mesoderm (PSM) tissue in the zebrafish embryo. The PSM undergoes rigorous morphological changes and has juxtaposed cells that exhibit continuous diverse and dynamic cell motions, thus providing a technically challenging platform for image analysis. We use synthetic data and transgenic chimeric embryos to assess and validate the performance of the algorithm. Algorithm development and testing was done in Matlab 7.10.0 (R2010a) and exported to the Fiji library- an open source, user-friendly platform for biological image analysis.