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Daniel Sage

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Publications associées (72)

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Analysis of S. pombe SIN protein association to the SPB reveals two genetically separable states of the SIN

Michaël Unser, Daniel Sage, Viesturs Simanis, Daniel Andreas Schmitter, Andrea Krapp, Jacques Rougemont

The Schizosaccharomyces pombe septation initiation network (SIN) regulates cytokinesis, and asymmetric association of SIN proteins with the mitotic spindle pole bodies (SPBs) is important for its regulation. Here, we have used semi-automated image analysis ...

Company Of Biologists Ltd2015

In pancreatic islets from type 2 diabetes patients, the dampened circadian oscillators lead to reduced insulin and glucagon exocytosis

Daniel Sage

Circadian clocks operative in pancreatic islets participate in the regulation of insulin secretion in humans and, if compromised, in the development of type 2 diabetes (T2D) in rodents. Here we demonstrate that human islet alpha- and beta-cells that bear a ...

National Academy of Sciences2020

W2S: Microscopy Data with Joint Denoising and Super-Resolution for Widefield to SIM Mapping

Sabine Süsstrunk, Daniel Sage, Majed El Helou, Arne Seitz, Ruofan Zhou, Thierry Laroche

In fluorescence microscopy live-cell imaging, there is a critical trade-off between the signal-to-noise ratio and spatial resolution on one side, and the integrity of the biological sample on the other side. To obtain clean high-resolution (HR) images, one ...

2020

A Practical Guide to Supervised Deep Learning for Bioimage Analysis: Challenges and good practices

Daniel Sage, Virginie Sophie Uhlmann, Laurène Donati

The variety of bioimage data and their quality have dramatically increased over the last decade. In parallel, the number of proposed deep learning (DL) models for their analysis grows by the day. Yet, the adequate reuse of published tools by practitioners ...

IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC2022

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

PixFRET, an ImageJ Plug-in for FRET Calculation That Can Accommodate Variations in Spectral Bleed-throughs

Daniel Sage

Fluorescence resonance energy transfer (FRET) allows the user to investigate interactions between fluorescent partners. One crucial issue when calculating sensitized emission FRET is the correction for spectral bleed-throughs (SBTs), which requires to calc ...

Wiley-Liss2005

SpotCaliper: Fast Wavelet-Based Spot Detection with Accurate Size Estimation

Michaël Unser, Daniel Sage, John Paul Ward, Zsuzsanna Püspöki

Motivation: SpotCaliper is a novel wavelet-based image-analysis software providing a fast automatic detection scheme for circular patterns (spots), combined with the precise estimation of their size. It is implemented as an ImageJ plugin with a friendly us ...

Oxford University Press2016

Phosphorylation does not prompt, nor prevent, the formation of alpha-synuclein toxic species in a rat model of Parkinson's disease

Michaël Unser, Patrick Aebischer, Bernard Schneider, Daniel Sage

Phosphorylation is involved in numerous neurodegenerative diseases. In particular, alpha-synuclein is extensively phosphorylated in aggregates in patients suffering from synucleinopathies. However, the share of this modification in the events that lead to ...

Oxford University Press2009

Comparison of Deconvolution Software: A User Point of View—Part 2

Alessandra Griffa, Daniel Sage

Deconvolution is an image processing technique that restores the effective object representation [3] [4], allowing to improve images analysis steps such as segmentation [1] or colocalization study [2]. We performed several deconvolution tests on different ...

EMS2010

Circadian Clock Characteristics Are Altered in Human Thyroid Malignant Nodules

Daniel Sage, Daniel Andreas Schmitter, Olivia Mariani

Context: The circadian clock represents the body's molecular time-keeping system. Recent findings revealed strong changes of clock gene expression in various types of human cancers. Objective: Due to emerging evidence on the connection between the circadia ...

Endocrine Soc2013

Fast O(1) Bilateral Filtering Using Trigonometric Range Kernels

Michaël Unser, Daniel Sage, Kunal Narayan Chaudhury

It is well known that spatial averaging can be realized (in space or frequency domain) using algorithms whose complexity does not scale with the size or shape of the filter. These fast algorithms are generally referred to as constant-time or O(1) algorithm ...

IEEE2011

A Simple, Fast and Low-Cost Method for in situ Monitoring of Topographical Changes and Wear Rate of a Complex Tribo-System Under Mixed Lubrication

Daniel Sage

This contribution presents a simple, fast, and low-cost method to track in situ and in real time the evolution of the surface topography. The method combines an optical method (collimated light) with image analysis. The method was validated using a complex ...

Elsevier2016

Investigating Focal Adhesion Substructures by Localization Microscopy

Aleksandra Radenovic, Daniel Sage, Hendrik Georges Deschout, Lely Feletti

Cells rely on focal adhesions (FAs) to carry out a variety of important tasks, including motion, environmental sensing, and adhesion to the extracellular matrix. Although attaining a fundamental characterization of FAs is a compelling goal, their extensive ...

Elsevier2017

Benchmarking Image-Processing Algorithms for Biomicroscopy: Reference Datasets and Perspectives

Michaël Unser, Daniel Sage, Cédric René Jean Vonesch, Stamatios Lefkimmiatis, Hagay Kirshner

As the field of bioimage informatics matures, the issue of the validation of image reconstruction algorithms and the definition of proper performance criteria becomes more pressing. In this work, we discuss benchmarking aspects of fluorescence microscopy q ...

EUSIPCO2013

On the Continuous Steering of the Scale of Tight Wavelet Frames

Michaël Unser, Daniel Sage, John Paul Ward, Zsuzsanna Püspöki

In analogy with steerable wavelets, we present a general construction of adaptable tight wavelet frames, with an emphasis on scaling operations. In particular, the derived wavelets can be "dilated" by a procedure comparable to the operation of steering ste ...

SIAM2016

The Marr Wavelet Pyramid and Multiscale Directional Image Analysis

Michaël Unser, Dimitri Nestor Alice Van De Ville, Daniel Sage

The “Marr wavelet pyramid” is a wavelet decomposition that implements a multiscale version of the complex gradient-Laplace operator. It is closely linked to a multiresolution analysis of

L _{ 2 }

(\mathbb{R} ^{ 2 }

) and it has a fast filterbank im ...

EURASIP2008

IP-LAB: A Tool to Teach Image Processing Programming in Java—Challenge in Swiss Federal Institute of Technology Lausanne

Michaël Unser, Daniel Sage

Image processing is getting more and more important because of the widespread use of digital imaging devices, such as digital cameras or digital videos. While image processing is a very practical discipline, it is perceived as being rather theoretical. It ...

JSEE2005

Low-Bond Axisymmetric Drop Shape Analysis for Surface Tension and Contact Angle Measurements of Sessile Drops

Michaël Unser, Thierry Blu, Daniel Sage, Michael Müller

A new method based on the Young-Laplace equation for measuring contact angles and surface tensions is presented. In this approach, a first-order perturbation technique helps to analytically solve the Young-Laplace equation according to photographic images ...

Elsevier2010

Lung Tissue Classification Using Wavelet Frames

Michaël Unser, Daniel Sage, Adrien Raphaël Depeursinge

We describe a texture classification system that identifies lung tissue patterns from high-resolution computed tomography (HRCT) images of patients affected with interstitial lung diseases (ILD). This pattern recognition task is part of an image-based diag ...

IEEE2007

Automatic Tracking of Individual Fluorescence Particles: Application to the Study of Chromosome Dynamics

Michaël Unser, Daniel Sage

We present a new, robust, computational procedure for tracking fluorescent markers in time-lapse microscopy. The algorithm is optimized for finding the time-trajectory of single particles in very noisy dynamic (two- or three-dimensional) image sequences. I ...

IEEE2005