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Published in Nature Methods - 28 Jun 2012

Fabrice de Chaumont, Stéphane Dallongeville, Nicolas Chenouard, Nicolas Hervé, Sorin Pop, Thomas Provoost, Vannary Meas-Yedid, Praveen Pankajakshan, Timothée Lecomte, Yoann Le Montagner, Thibault Lagache, Alexandre Dufour, Jean-Christophe Olivo-Marin

Link to Pubmed [PMID] – 22743774

Link to HAL – pasteur-03721347

Link to DOI – 10.1038/nmeth.2075

Nature Methods, 2012, 9 (7), pp.690-696. ⟨10.1038/nmeth.2075⟩

Current research in biology uses evermore complex computational and imaging tools. Here we describe Icy, a collaborative bioimage informatics platform that combines a community website for contributing and sharing tools and material, and software with a high-end visual programming framework for seamless development of sophisticated imaging workflows. Icy extends the reproducible research principles, by encouraging and facilitating the reusability, modularity, standardization and management of algorithms and protocols. Icy is free, open-source and available at http://icy.bioimageanalysis.org/.

Projects

PTR 232-2019. Mechabiome. Computational imaging of the spatiotemporal distribution of forces in gut tissue: a study of the cross talk between cell mechanics, microbiome and infectious processes

Mechanical forces trigger many cellular functions and change the geometry and physical properties of a tissue. Very few studies look at the biomechanisms of invasion of microbes at tissue level. – In this project […]

Impact of tissue components on cell migration: adhesion strength, cell morpho-dynamics and intracellular biophysics parameters.

We aim to analyze the impact of substrates on Entamoeba histolytica mode of migration during colonic mucosa invasion using live imaging and quantitative image analysis. E. histolytica, the etiological agent of amoebiasis, is a […]

Imaging and mathematical modelling of cell morphology and motility

Elucidating the mechanisms underlying cell deformation and motility is a topic of major interest in cell biology, for they are strongly involved in cell development, immune responses, cancer and infectious diseases. This projects focuses on the […]