A subjective surfaces based segmentation for the reconstruction of biological cell shape

Matteo Campana; Cecilia Zanella; Barbara Rizzi; Paul Bourgine; Nadine Peyriéras; Alessandro Sarti

hal-00723375, version 1

A subjective surfaces based segmentation for the reconstruction of biological cell shape

Matteo Campana ¹, Cecilia Zanella ¹, Barbara Rizzi ¹, Paul Bourgine ^2, 3, Nadine Peyriéras ^4, 5, 6, Alessandro Sarti ¹

VISAPP 2008 INSTICC - Institute for Systems and Technologies of Information, Control and Communication (Ed.) (2008) 555-558

Résumé : Confocal laser scanning microscopy provides nondestructive in vivo imaging to capture specific structures that have been fluorescently labeled, such as cell nuclei and membranes, throughout early Zebrafish embryogenesis. With this strategy we aim at reconstruct in time and space the biological tructures of the embryo during the organogenesis. In this paper we propose a method to extract bounding surfaces at the cellular-organization level from microscopy images. The shape reconstruction of membranes and nuclei is obtained first with an automatic identification of the cell center and then a subjective surfaces based segmentation is used to extract the bounding surfaces.

1 : Dipartimento di Elettronica, Informatica e Sistemistica (DEIS)
University of Bologna
2 : Centre de recherche en épistémologie appliquée (CREA)
CNRS : UMR7656 – Polytechnique - X
3 : Réseau National des Systèmes Complexes (RNSC)
CNRS : UMR0 – INSERM : U0 – Institut national de la recherche agronomique (INRA) : UMR0 – Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER) – Centre de coopération internationale en recherche agronomique pour le développement [CIRAD] : UMR0 – INRIA – Institut de recherche pour le développement [IRD] – CGE – CPU
4 : Neurobiologie et Développement (N&eD)
CNRS : UPR3294 – Université Paris XI - Paris Sud
5 : Institut des Systèmes Complexes - Paris Ile-de-France (ISC-PIF)
CNRS : UMR7656 – Institut Curie – Université Paris XI - Paris Sud – Université Paris I - Panthéon-Sorbonne – Université Pierre et Marie Curie [UPMC] - Paris VI – École normale supérieure de Cachan - ENS Cachan – Ecole normale supérieure de Paris - ENS Paris – Polytechnique - X
6 : Institut de Neurobiologie Alfred Fessard (INAF)
CNRS : FRC2118

hal-00723375, version 1
http://hal.archives-ouvertes.fr/hal-00723375
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Contributeur : Alain Perignon <>
Soumis le : Jeudi 9 Août 2012, 13:53:42
Dernière modification le : Jeudi 9 Août 2012, 13:53:42

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%% hal-00723375, version 1
%% http://hal.archives-ouvertes.fr/hal-00723375
@incollection{campana:hal-00723375,
    hal_id = {hal-00723375},
    url = {http://hal.archives-ouvertes.fr/hal-00723375},
    title = {{A subjective surfaces based segmentation for the reconstruction of biological cell shape}},
    author = {Campana, Matteo and Zanella, Cecilia and Rizzi, Barbara and Bourgine, Paul and Peyri{\'e}ras, Nadine and Sarti, Alessandro},
    abstract = {{Confocal laser scanning microscopy provides nondestructive in vivo imaging to capture specific structures that have been fluorescently labeled, such as cell nuclei and membranes, throughout early Zebrafish embryogenesis. With this strategy we aim at reconstruct in time and space the biological tructures of the embryo during the organogenesis. In this paper we propose a method to extract bounding surfaces at the cellular-organization level from microscopy images. The shape reconstruction of membranes and nuclei is obtained first with an automatic identification of the cell center and then a subjective surfaces based segmentation is used to extract the bounding surfaces.}},
    keywords = {Image Segmentation;Surface Geometry;Shape extraction;Biological Image Analysis},
    language = {Anglais},
    affiliation = {Dipartimento di Elettronica, Informatica e Sistemistica - DEIS , Centre de recherche en {\'e}pist{\'e}mologie appliqu{\'e}e - CREA , R{\'e}seau National des Syst{\`e}mes Complexes - RNSC , Neurobiologie et D{\'e}veloppement - N\&eD , Institut des Syst{\`e}mes Complexes - Paris Ile-de-France - ISC-PIF , Institut de Neurobiologie Alfred Fessard - INAF},
    booktitle = {{VISAPP 2008}},
    publisher = {INSTICC - Institute for Systems and Technologies of Information, Control and Communication},
    pages = {555-558},
    editor = {Ranchordas Alpesh and Ara{\'u}jo Helder },
    series = {Proceedings of the Third International Conference on Computer Vision Theory and Applications Volume 1 },
    note = {3rd International Conference on Computer Vision Theory and Applications: Funchal, PORTUGAL, JAN 22-25, 2008 },
    audience = {internationale },
    isbn = {978-989-8111-21-0 },
    year = {2008},
}

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