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  Geometrical characterization of fluorescently labelled surfaces from noisy 3D microscopy data

Shelton, E., Serwane, F., & Campàs, O. (2018). Geometrical characterization of fluorescently labelled surfaces from noisy 3D microscopy data. Journal of Microscopy, 269(3), 259-268. doi:10.1111/jmi.12624.

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 Creators:
Shelton, Elijah, Author
Serwane, Friedhelm1, 2, Author              
Campàs, Otger, Author
Affiliations:
1Cellular Biophysics, Max Planck Institute for Medical Research, Max Planck Society, ou_2364731              
2Biophysical Chemistry, Institute of Physical Chemistry, University of Heidelberg, 69120 Heidelberg, Germany, ou_persistent22              

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Free keywords: Confocal microscopy; differential surface analysis; image analysis; image segmentation; mean curvature; software; 3D reconstruction
 Abstract: Modern fluorescence microscopy enables fast 3D imaging of biological and inert systems alike. In many studies, it is important to detect the surface of objects and quantitatively characterize its local geometry, including its mean curvature. We present a fully automated algorithm to determine the location and curvatures of an object from 3D fluorescence images, such as those obtained using confocal or light-sheet microscopy. The algorithm aims at reconstructing surface labelled objects with spherical topology and mild deformations from the spherical geometry with high accuracy, rather than reconstructing arbitrarily deformed objects with lower fidelity. Using both synthetic data with known geometrical characteristics and experimental data of spherical objects, we characterize the algorithm's accuracy over the range of conditions and parameters typically encountered in 3D fluorescence imaging. We show that the algorithm can detect the location of the surface and obtain a map of local mean curvatures with relative errors typically below 2% and 20%, respectively, even in the presence of substantial levels of noise. Finally, we apply this algorithm to analyse the shape and curvature map of fluorescently labelled oil droplets embedded within multicellular aggregates and deformed by cellular forces.

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Language(s): eng - English
 Dates: 2017-04-112017-08-092018-02-132018-03-01
 Publication Status: Published in print
 Pages: 10
 Publishing info: -
 Table of Contents: -
 Rev. Type: Peer
 Identifiers: DOI: 10.1111/jmi.12624
 Degree: -

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Title: Journal of Microscopy
Source Genre: Journal
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Publ. Info: Oxford : Blackwell Science
Pages: - Volume / Issue: 269 (3) Sequence Number: - Start / End Page: 259 - 268 Identifier: ISSN: 0022-2720
CoNE: https://pure.mpg.de/cone/journals/resource/954927663105_2