SPFluo

Presentation

Recent advances in super-resolution methods have dramatically improved the resolution of fluorescence microscopy. It is now possible to observe protein structures within macromolecular assemblies that were previously only visible using electron microscopy. However, these advances remain limited by the anisotropic resolution of optical microscopes and by the incomplete fluorescent labeling of structures. The SP-Fluo project aims to overcome these limitations to make the use of fluorescence microscopy in structural biology both possible and reliable. Anisotropic resolution and partial labeling are intrinsic physical limitations of fluorescence imaging. This is why we are approaching the problem from a computational perspective. Our approach consists of developing single-particle reconstruction methods, which combine observations from a large number of identical and randomly oriented particles, to reconstruct a unique, high-resolution particle model. The SP-Fluo project addresses the methodological bottlenecks in image processing throughout the entire processing chain, while simultaneously conducting applied research in biology. The algorithms developed during the project will be distributed as public software.

Members

• Denis Fortun, ICube, CNRS
• Etienne Baudrier, ICube, University of Strasbourg
• Sylvain Faisan, ICube, University of Strasbourg
• Ferréol Soulez, CRAL, UCBL
• Emmanuel Soubies, IRIT, CNRS
• Paul Guichard, University dof Geneva
• Virginie Hamel, University of Geneva
• Markus Sauer, University of Wurzburg

Publications

Multiview point cloud registration with anisotropic and space-varying localization noise.
Denis Fortun, Etienne Baudrier, Fabian Zwettler, Markus Sauer, Sylvain Faisan.
Preprint, 2024 [arxiv]

iU-ExM: nanoscopy of organelles and tissues with iterative ultrastructure expansion microscopy.
Vincent Louvel, Romuald Haase, Olivier Mercey, Marine H Laporte, Thibaut Eloy, Étienne Baudrier, Denis Fortun, Dominique Soldati-Favre, Virginie Hamel, Paul Guichard.
Nature Communications, 2023 [open access]

Fast and robust single particle reconstruction in 3D fluorescence microscopy.
Thibaut Eloy, Étienne Baudrier, Marine Laporte, Virginie Hamel, Paul Guichard, Denis Fortun.
IEEE Transactions on Computational Imaging, 2023 [arxiv]

Stacked Pointnets For Alignment Of Particles With Cylindrical Symmetry In Single Molecule Localization Microscopy.
Youbo Fan, Sylvain Faisan, Étienne Baudrier, Fabian Zwettler, Markus Sauer, Denis Fortun.
IEEE International Symposium on Biomedical Imaging (ISBI), 2021 [hal]

Tools