Publications de François Aguet

3-D PSF fitting for fluorescence microscopy: implementation and localization application

Michaël Unser, Daniel Sage, François Aguet, Hagay Kirshner

Localization microscopy relies on computationally efficient Gaussian approximations of the point spread function for the calculation of fluorophore positions. Theoretical predictions show that under specific experimental conditions, localization accuracy i ...

Wiley-Blackwell2013

Super-resolved position and orientation estimation of fluorescent dipoles using 3-D steerable filters

Iwan Märki, Theo Lasser, François Aguet, Stefan Geissbühler

The diffraction patterns of fixed fluorophores are characteristic of the orientation of the molecules' underlying dipole. Fluorescence localization microscopy techniques such as PALM and STORM achieve super-resolution by sequentially imaging sparse subsets ...

Spie-Int Soc Optical Engineering, Po Box 10, Bellingham, Wa 98227-0010 Usa2010

Three-dimensional nano-localization of single fluorescent emitters

Iwan Märki, Theo Lasser, François Aguet, Stefan Geissbühler, Noelia Laura Bocchio

We present a combination of self-interference microscopy with lateral super-resolution microscopy and introduce a novel approach for localizing a single nano-emitter to within a few nanometers in all three dimensions over a large axial range. We demonstrat ...

Optical Society of America2010

Optical Imaging Using Binary Sensors

Michaël Unser, François Aguet, Aurélien Bourquard

This paper addresses the problem of reconstructing an image from 1-bit-quantized measurements, considering a simple but nonconventional optical acquisition model. Following a compressed-sensing design, a known pseudo-random phase-shifting mask is introduce ...

OSA2010

Steerable filters for orientation estimation and localization of fluorescent dipoles

Iwan Märki, Michaël Unser, Theo Lasser, François Aguet, Stefan Geissbühler

Fluorescence localization microscopy (i.e., PALM, STORM) has enabled optical imaging at nanometer-scale resolutions. The localization algorithms used in these techniques rely on fitting a 2-D Gaussian to the in-focus image of individual fluorophores. For f ...

Ieee Service Center, 445 Hoes Lane, Po Box 1331, Piscataway, Nj 08855-1331 Usa2009

Super-resolution fluorescence microscopy based on physical models

François Aguet

This thesis introduces a collection of physics-based methods for super-resolution in optical microscopy. The core of these methods constitutes a framework for 3-D localization of single fluorescent molecules. Localization is formulated as a parameter estim ...

EPFL2009

Super-resolution orientation estimation and localization of fluorescent dipoles using 3-D steerable filters

Iwan Märki, Michaël Unser, Theo Lasser, François Aguet, Stefan Geissbühler

Fluorophores that are fixed during image acquisition produce a diffraction pattern that is characteristic of the orientation of the fluorophore’s underlying dipole. Fluorescence localization microscopy techniques such as PALM and STORM achieve super-resolu ...

OSA2009

An accurate PSF model with few parameters for axially shift-variant deconvolution

Michaël Unser, François Aguet, Dimitri Nestor Alice Van De Ville

Accurate knowledge of an imaging system's point spread function (PSF) is crucial for successful deconvolution. For fluorescence microscopy, PSF estimations based on either theoretical models or experimental measurements are available. However, due to the a ...

Ieee Service Center, 445 Hoes Lane, Po Box 1331, Piscataway, Nj 08855-1331 Usa2008

Model-Based 2.5-D Deconvolution for Extended Depth of Field in Brightfield Microscopy

Michaël Unser, François Aguet, Dimitri Nestor Alice Van De Ville

Due to the limited depth of field of brightfield microscopes, it is usually impossible to image thick specimens entirely in focus. By optically sectioning the specimen, the in-focus information at the specimen's surface can be acquired over a range of imag ...

IEEE2008

Parametric B-Spline Snakes on Distance Maps—Application to Segmentation of Histology Images

Philippe Thévenaz, Michaël Unser, François Aguet, Chandra Sekhar Seelamantula

We construct parametric active contours (snakes) for outlining cells in histology images. These snakes are defined in terms of cubic B-spline basis functions. We use a steerable ridge detector for obtaining a reliable map of the cell boundaries. Using the ...

EURASIP2008

Sub-resolution maximum-likelihood based localization of fluorescent nanoparticles in three dimensions

Michaël Unser, François Aguet, Dimitri Nestor Alice Van De Ville

Several recent studies have shown that fluorescent particles can be localized with an accuracy that is well beyond traditional resolution limits. Using a theoretical model of the image formation process that accounts for possible sources of noise, Cramer-R ...

Ieee Service Center, 445 Hoes Lane, Po Box 1331, Piscataway, Nj 08855-1331 Usa2007

Joint Texture and Topography Estimation for Extended Depth of Field in Brightfield Microscopy

Michaël Unser, François Aguet, Dimitri Nestor Alice Van De Ville

Brightfield microscopy often suffers from limited depth of field, which prevents thick specimens from being imaged entirely in-focus. By optically sectioning the specimen, the in-focus regions can be acquired over multiple images. Extended depth of field m ...

IEEE2006

The Colored Revolution of Bioimaging

Michaël Unser, François Aguet, Cédric René Jean Vonesch

With the recent development of fluorescent probes and new high-resolution microscopes, biological imaging has entered a new era and is presently having a profound impact on the way research is being conducted in the life sciences. Biologists have come to d ...

IEEE2006

Sub-Resolution Axial Localization of Nanoparticles in Fluorescence Microscopy

Michaël Unser, François Aguet, Dimitri Nestor Alice Van De Ville

SPIE2005

Three-Dimensional Feature Detection Using Optimal Steerable Filters

Michaël Unser, Mathews Jacob, François Aguet

We present a framework for feature detection in 3-D using steerable filters. These filters can be designed to optimally respond to a particular type of feature by maximizing several Canny-like criteria. The detection process involves the analytical computa ...

IEEE2005

A Maximum-Likelihood Formalism for Sub-Resolution Axial Localization of Fluorescent Nanoparticles

Michaël Unser, François Aguet, Dimitri Nestor Alice Van De Ville

One of the ongoing challenges in single particle fluorescence microscopy resides in estimating the axial position of particles with sub-resolution precision. Due to the complexity of the diffraction patterns generated by such particles, the standard fittin ...

OSA2005