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Segmenting the sepal and shoot apical meristem of Arabidopsis thaliana

Cunha, Alexandre L. and Roeder, Adrienne H. K. and Meyerowitz, Elliot M. (2010) Segmenting the sepal and shoot apical meristem of Arabidopsis thaliana. In: 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC). IEEE Engineering in Medicine and Biology Society Conference Proceedings . IEEE , Piscataway, NJ, pp. 5338-5342. ISBN 978-1-4244-4123-5. https://resolver.caltech.edu/CaltechAUTHORS:20110506-134229918

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Abstract

We present methods for segmenting the sepal and shoot apical meristem of the Arabidopsis thaliana plant. We propose a mathematical morphology pipeline and a modified numerical scheme for the active contours without edges algorithm to extract the geometry and topology of plant cells imaged using confocal laser scanning microscopy. We demonstrate our methods in typical images used in the studies of cell endoreduplication and hormone transport and show that in practice they produce highly accurate results requiring little human intervention to cope with image aberrations.


Item Type:Book Section
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1109/IEMBS.2010.5626342 DOIArticle
ORCID:
AuthorORCID
Cunha, Alexandre L.0000-0002-2541-6024
Meyerowitz, Elliot M.0000-0003-4798-5153
Additional Information:© 2010 IEEE. Issue Date: Aug. 31 2010-Sept. 4 2010. Date of Current Version: 11 November 2010. This research was supported by a grant to the California Institute of Technology from the Gordon and Betty Moore Foundation, by Department of Energy Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences and Biosciences grant DE-FG02-88ER13873, and by National Science Foundation grant IOS-0846192. We thank Marcus Heisler from EMBL Heidelberg for providing confocal images of shoot apical meristems and members of the Computable Plant and Computational Morphodynamics projects at Caltech and UCI for valuable discussions and feedback.
Funders:
Funding AgencyGrant Number
Gordon and Betty Moore FoundationUNSPECIFIED
Department of Energy (DOE)DE-FG02-88ER13873
NSFIOS-0846192
Series Name:IEEE Engineering in Medicine and Biology Society Conference Proceedings
DOI:10.1109/IEMBS.2010.5626342
Record Number:CaltechAUTHORS:20110506-134229918
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20110506-134229918
Official Citation:Cunha, A.L.; Roeder, A.H.K.; Meyerowitz, E.M.; , "Segmenting the sepal and shoot apical meristem of Arabidopsis thaliana," Engineering in Medicine and Biology Society (EMBC), 2010 Annual International Conference of the IEEE , vol., no., pp.5338-5342, Aug. 31 2010-Sept. 4 2010 doi: 10.1109/IEMBS.2010.5626342 URL: http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=5626342&isnumber=5625939
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:23581
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:12 May 2011 23:25
Last Modified:09 Nov 2021 16:16

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