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Vercauteren, Tom (2008) Recalage et mosaïques d'images pour la microscopie confocale fibrée dynamique in vivo. Doctorat Informatique Temps Réel, Automatique et Robotique, CMA - Centre de Mathématiques Appliquées, ENSMP p.162.
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Résumé
Recalage et Mosaïques d’Images pour la Microscopie
Confocale Fibrée Dynamique In Vivo
La microscopie confocale classique permet d’obtenir des images à haute réso-
lution de cellules en culture ou dans un tissu biologique excisé. Cette technologie
peut être adaptée aux applications in vivo grâce à l’utilisation de fibres optiques et
d’optiques miniaturisées. A terme, la microscopie confocale fibrée devrait permettre
aux médecins et biologistes de réaliser des biopsies optiques; c’est à dire un exa-
men histologique, en temps réel, des tissus biologiques à l’intérieur d’un organisme
vivant et directement au contact de la zone d’intérêt.
Le but premier de cette thèse est de dépasser les limites matérielles de ces in-
struments d’imagerie en développant des outils de recalage d’images spécifiques et
innovants. En particulier, le propos de ce manuscrit est cadré par l’objectif de pro-
poser, au travers d’outils de création de mosaïques d’images, des biopsies optiques
à grand champ aux médecins. Cette application est considérée, dans cette thèse,
comme un système, ou un circuit, qui prendrait en entrée un flot de données brutes
et délivrerait en sortie des mosaïques d’images à grand champ. Nous détaillons les
éléments critiques de ce système, en particulier la reconstruction d’images en temps
réel, le recalage linéaire d’images et le recalage non linéaire, avant de présenter la
structure du système complet.
Les données brutes produites par la microscopie confocale fibrée sont difficiles à
interpréter parce qu’elle sont modulées par la structure en nid d’abeille du réseau
de fibres optiques et parce qu’elle sont entachées d’artefacts géométriques. Dans
ce contexte, nous montrons qu’une reconstruction en temps réel des images peut
être utilisée en pré-traitement afin de produire des séquences vidéos directement
interprétables. Comme la microscopie confocale fibrée est une imagerie qui se
fait au contact des tissus, le mouvement relatif du tissu par rapport à la sonde
optique implique qu’il est parfois difficile d’obtenir de manière robuste certaines
mesures quantitatives d’intérêt. Nous avons donc attaqué le problème du recalage
linéaire, efficace et robuste de paires d’images. Nous montrons que des outils ré-
cents provenant du domaine du contrôle robotique par la vision peuvent surpasser
les solutions standards utilisées en analyse d’images biomédicales. L’adéquation de
ces outils au problème du recalage linéaire d’images nous a amenés à revisiter le
problème du recalage non-linéaire. En interprétant le recalage non-linéaire comme
un problème d’optimisation sur un groupe de Lie, nous développons un algorithme
rapide de recalage difféomorphe non-paramétrique d’images. En plus d’être dif-
féomorphe, notre algorithme produit des résultats qui sont similaires à ceux de
l’algorithme des démons de Thirion mais qui sont plus lisses et plus proche de la
vérité.
Finalement, nous obtenons une boîte à outils de reconstruction et de recalage
d’images que nous utilisons pour proposer un algorithme robuste de création de
mosaïques d’images qui permette de calculer un alignement globalement cohérent
à partir de résultats locaux, de compenser les distorsions liées au mouvement et de
retrouver les déformations non-rigides. Par ailleurs, notre algorithme de mosaïques
d’images a récemment été incorporé dans un essai clinique multicentrique. Cet essai
illustre l’intérêt clinique de nos outils dans le cadre spécifique de la surveillance de
l’oesophage de Barrett.
| Type d'EPrint: | Thèse (Doctorat) |
|---|---|
| Directeur de Mémoire: | Ayache, Nicholas et Pennec, Xavier |
| Date: | 25 Janvier 2008 |
| Jury de Mémoire: | Faugeras, Olivier et Golland, Polina et Navab, Nassir et Ayache, Nicholas et Pennec, Xavier et Perchant, Aymeric et Becker, Valentin et Loiseau, Sacha |
| Ecole Doctorale: | ED 084 SCIENCES ET TECHNOLOGIES DE L'INFORMATION ET DE LA COMMUNICATION |
| Discipline: | Informatique Temps Réel, Automatique et Robotique |
| Fonds: | ENSMP |
| Institution: | ENSMP |
| Laboratoire: | CMA - Centre de Mathématiques Appliquées |
| Sujets: | 2. Sciences et technologies de l'information et de la communication |
| Mots-clés libres: | Confocal microscopy, Microscopie confocale, Image registration, Recalage image, Difeormorphism, Difféomorphisme, Cell, Cellule, Biological tissues, Tissu biologique, Medical imagery, Imagerie médicale, Image reconstruction, Reconstruction image |
| Code ID: | 3804 |
| Déposé par : | Claudine Abauzit |
| Déposé le : | 06 Juin 2008 |
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