Publications by Denis Fortun | EPFL Graph Search

Homogeneous multifocal excitation for high-throughput super-resolution imaging

Pierre Gönczy, Suliana Manley, Kyle Michael Douglass, Khalid Ashraf Mohie Ibrahim, Davide Gambarotto, Paul Guichard, Virginie Hamel, Niccolo Banterle, Dora Mahecic, Denis Fortun

Super-resolution microscopies have become an established tool in biological research. However, imaging throughput remains a main bottleneck in acquiring large datasets required for quantitative biology. Here we describe multifocal flat illumination for fie ...

2020

Imaging cellular ultrastructures using expansion microscopy (U-ExM)

Michaël Unser, Paul Guichard, Davide Gambarotto, Virginie Hamel, Denis Fortun

Determining the structure and composition of macromolecular assemblies is a major challenge in biology. Here we describe ultrastructure expansion microscopy (U-ExM), an extension of expansion microscopy that allows the visualization of preserved ultrastruc ...

2019

Imaging neural activity in the ventral nerve cord of behaving adult Drosophila

Michaël Unser, Pavan P Ramdya, Chin-Lin Chen, Florian Aymanns, Denis Fortun, Laura Joan Hermans

To understand neural circuits that control limbs, one must measure their activity during behavior. Until now this goal has been challenging, because limb premotor and motor circuits have been largely inaccessible for large-scale recordings in intact, movin ...

Nature Research2018

Fast Piecewise-Affine Motion Estimation Without Segmentation

Michaël Unser, Martin Kurt Storath, Denis Fortun

2018

Reconstruction From Multiple Particles for 3D Isotropic Resolution in Fluorescence Microscopy

Michaël Unser, Pierre Gönczy, Paul Guichard, Virginie Hamel, Denis Fortun, Niccolo Banterle

Institute of Electrical and Electronics Engineers2018

DeconvolutionLab2: An Open-Source Software for Deconvolution Microscopy

Michaël Unser, Daniel Sage, Cédric René Jean Vonesch, Laurène Donati, Ferréol Arnaud Marie Soulez, Denis Fortun, Guillaume Schmit

Images in fluorescence microscopy are inherently blurred due to the limit of diffraction of light. The purpose of deconvolution microscopy is to compensate numerically for this degradation. Deconvolution is widely used to restore fine details of 3D biologi ...

2017

Isotropic Resolution in Fluorescence Imaging by Single Particle Reconstruction

Michaël Unser, Paul Guichard, Denis Fortun, Ning Chu

Low axial resolution is a major limitation of fluorescence imaging modalities. We propose a methodology to achieve high isotropic resolution by reconstructing fluorescence volumes from observations of multiple particle replicates with different orientation ...

IEEE2016

A Variational Aggregation Framework for Patch-Based Optical Flow Estimation

Denis Fortun

We propose a variational aggregation method for optical flow estimation. It consists of a two-step framework, first estimating a collection of parametric motion models to generate motion candidates, and then reconstructing a global dense motion field. The ...

Springer2016

Reconstruction From Multiple Poses in Fluorescence Imaging: Proof of Concept

Michaël Unser, Paul Guichard, Ning Chu, Denis Fortun

One disadvantage of all fluorescence imaging modalities is a poor axial resolution. To overcome this issue, we propose a novel approach to reconstruct fluorescence volumes with isotropic high resolution, from images of particle replicates observed at multi ...

Ieee-Inst Electrical Electronics Engineers Inc2016

Optical Flow Modeling and Computation: A Survey

Denis Fortun

Optical flow estimation is one of the oldest and still most active research domains in computer vision. In 35 years, many methodological concepts have been introduced and have progressively improved performances, while opening the way to new challenges. In ...

Elsevier2015