TissueMiner: A multiscale analysis toolkit to quantify how cellular processes create tissue dynamics

Abstract : Segmentation and tracking of cells in long-term time-lapse experiments has emerged as a powerful method to understand how tissue shape changes emerge from the complex choreography of constituent cells. However, methods to store and interrogate the large datasets produced by these experiments are not widely available. Furthermore, recently developed methods for relating tissue shape changes to cell dynamics have not yet been widely applied by biologists because of their technical complexity. We therefore developed a database format that stores cellular connectivity and geometry information of deforming epithelial tissues, and computational tools to interrogate it and perform multi-scale analysis of morphogenesis. We provide tutorials for this computational framework, called TissueMiner, and demonstrate its capabilities by comparing cell and tissue dynamics in vein and inter-vein subregions of the Drosophila pupal wing. These analyses reveal an unexpected role for convergent extension in shaping wing veins.
Liste complète des métadonnées

Littérature citée [26 références]  Voir  Masquer  Télécharger

Contributeur : Raphael Etournay <>
Soumis le : vendredi 23 juin 2017 - 12:56:47
Dernière modification le : mardi 28 août 2018 - 17:08:01
Document(s) archivé(s) le : mercredi 10 janvier 2018 - 22:16:45


Publication financée par une institution

  •  Etournay et al. - 2016 - TissueMiner a multiscale analysis toolkit to quan.pdf    Visible le : jamais  Fichiers produits par l'(les) auteur(s)


Distributed under a Creative Commons Paternité 4.0 International License




Raphael Etournay, Matthias Merkel, Marko Popović, Holger Brandl, Natalie A. Dye, et al.. TissueMiner: A multiscale analysis toolkit to quantify how cellular processes create tissue dynamics. eLife, eLife Sciences Publication, 2016, eLife 2016 (5), pp.14334. 〈10.7554/eLife.14334〉. 〈pasteur-01545827〉



Consultations de la notice


Téléchargements de fichiers