Journal
IEEE TRANSACTIONS ON IMAGE PROCESSING
Volume 19, Issue 3, Pages 770-781Publisher
IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC
DOI: 10.1109/TIP.2009.2033629
Keywords
Bioimaging; confocal imaging; image processing; segmentation; subjective surfaces
Funding
- European projects Embryomicsv (NEST) [12916]
- BioEmergences [28892]
- Computer Vision Foundations and Applications [Alfa II-0366-FA]
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We designed a strategy for extracting the shapes of cell membranes and nuclei from time lapse confocal images taken throughout early zebrafish embryogenesis using a partial-differential-equation-based segmentation. This segmentation step is a prerequisite for an accurate quantitative analysis of cell morphodynamics during embryogenesis and it is the basis for an integrated understanding of biological processes. The segmentation of embryonic cells requires live zebrafish embryos fluorescently labeled to highlight sub-cellular structures and designing specific algorithms by adapting classical methods to image features. Our strategy includes the following steps: the signal-to-noise ratio is first improved by an edge-preserving filtering, then the cell shape is reconstructed applying a fully automated algorithm based on a generalized version of the Subjective Surfaces technique. Finally we present a procedure for the algorithm validation either from the accuracy and the robustness perspective.
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