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Region-Based PDEs for Cells Counting and Segmentation in 3D+Time Images of Vertebrate Early Embryogenesis

This paper is devoted to the segmentation of cell nuclei from time lapse confocal microscopy images, taken throughout early Zebrafish embryogenesis. The segmentation allows to identify and quantify the number of cells in the animal model. This kind of information is relevant to estimate important bi...

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Detalles Bibliográficos
Autores principales: Rizzi, Barbara, Sarti, Alessandro
Formato: Texto
Lenguaje:English
Publicado: Hindawi Publishing Corporation 2009
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2760399/
https://www.ncbi.nlm.nih.gov/pubmed/19830251
http://dx.doi.org/10.1155/2009/968986
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author Rizzi, Barbara
Sarti, Alessandro
author_facet Rizzi, Barbara
Sarti, Alessandro
author_sort Rizzi, Barbara
collection PubMed
description This paper is devoted to the segmentation of cell nuclei from time lapse confocal microscopy images, taken throughout early Zebrafish embryogenesis. The segmentation allows to identify and quantify the number of cells in the animal model. This kind of information is relevant to estimate important biological parameters such as the cell proliferation rate in time and space. Our approach is based on the active contour model without edges. We compare two different formulations of the model equation and evaluate their performances in segmenting nuclei of different shapes and sizes. Qualitative and quantitative comparisons are performed on both synthetic and real data, by means of suitable gold standard. The best approach is then applied on a number of time lapses for the segmentation and counting of cells during the development of a zebrafish embryo between the sphere and the shield stage.
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spelling pubmed-27603992009-10-14 Region-Based PDEs for Cells Counting and Segmentation in 3D+Time Images of Vertebrate Early Embryogenesis Rizzi, Barbara Sarti, Alessandro Int J Biomed Imaging Research Article This paper is devoted to the segmentation of cell nuclei from time lapse confocal microscopy images, taken throughout early Zebrafish embryogenesis. The segmentation allows to identify and quantify the number of cells in the animal model. This kind of information is relevant to estimate important biological parameters such as the cell proliferation rate in time and space. Our approach is based on the active contour model without edges. We compare two different formulations of the model equation and evaluate their performances in segmenting nuclei of different shapes and sizes. Qualitative and quantitative comparisons are performed on both synthetic and real data, by means of suitable gold standard. The best approach is then applied on a number of time lapses for the segmentation and counting of cells during the development of a zebrafish embryo between the sphere and the shield stage. Hindawi Publishing Corporation 2009 2009-10-08 /pmc/articles/PMC2760399/ /pubmed/19830251 http://dx.doi.org/10.1155/2009/968986 Text en Copyright © 2009 B. Rizzi and A. Sarti. https://creativecommons.org/licenses/by/3.0/ This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Article
Rizzi, Barbara
Sarti, Alessandro
Region-Based PDEs for Cells Counting and Segmentation in 3D+Time Images of Vertebrate Early Embryogenesis
title Region-Based PDEs for Cells Counting and Segmentation in 3D+Time Images of Vertebrate Early Embryogenesis
title_full Region-Based PDEs for Cells Counting and Segmentation in 3D+Time Images of Vertebrate Early Embryogenesis
title_fullStr Region-Based PDEs for Cells Counting and Segmentation in 3D+Time Images of Vertebrate Early Embryogenesis
title_full_unstemmed Region-Based PDEs for Cells Counting and Segmentation in 3D+Time Images of Vertebrate Early Embryogenesis
title_short Region-Based PDEs for Cells Counting and Segmentation in 3D+Time Images of Vertebrate Early Embryogenesis
title_sort region-based pdes for cells counting and segmentation in 3d+time images of vertebrate early embryogenesis
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2760399/
https://www.ncbi.nlm.nih.gov/pubmed/19830251
http://dx.doi.org/10.1155/2009/968986
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