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Daniel Sage

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Publications associées (72)

Pancreatic α- and β-Cellular Clocks Have Distinct Molecular Properties and Impact on Islet Hormone Secretion and Gene Expression

Michaël Unser, Daniel Sage, Cédric Gobet, Frédéric Bruno Martin Gachon

A critical role of circadian oscillators in orchestrating insulin secretion and islet gene transcription has been demonstrated recently. However, these studies focused on whole islets and did not explore the interplay between α-cell and β-cell clocks. We p ...

2017

DeconvolutionLab2: An Open-Source Software for Deconvolution Microscopy

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

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

Super-Resolution Fight Club

Daniel Sage

A 2016 competition to find the optimum software for 3D single-molecule localization microscopy will help practitioners choose the best tool for the job and spur further developments in the field. ...

Nature Publishing Group2016

A Feasability Study of Color Flow Doppler Vectorization for Automated Blood Flow Monitoring

Daniel Sage, Anaïs Laure Marie-Thérèse Badoual

An ongoing issue in vascular medicine is the measure of the blood flow. Catheterization remains the gold standard measurement method, although non-invasive techniques are an area of intense research. We hereby present a computational method for real-time m ...

2016

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, Bastian Meylan

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

Variational Phase Imaging Using the Transport-of-Intensity Equation

Michaël Unser, Daniel Sage, Emrah Bostan, Masih Nilchian, Emmanuel Augustin Julien Froustey

We introduce a variational phase retrieval algorithm for the imaging of transparent objects. Our formalism is based on the transport-of-intensity equation (TIE), which relates the phase of an optical field to the variation of its intensity along the direct ...

IEEE2016

On the Continuous Steering of the Scale of Tight Wavelet Frames

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

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

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

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

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 Journals2016

Fast Detection and Refined Scale Estimation Using Complex Isotropic Wavelets

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

The dyadic scaling in the discrete wavelet transform can lead to a loss of precision, in comparison to the computationally unrealistic continuous wavelet transform. To overcome this obstacle, we propose a novel method to locally scale wavelets between dyad ...

IEEE2015

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, Anastasia Chasapi, Ioannis Xenarios

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

Quantitative evaluation of software packages for single-molecule localization microscopy

Michaël Unser, Daniel Sage, Suliana Manley, Hagay Kirshner, Thomas Pengo

The quality of super-resolution images obtained by single-molecule localization microscopy (SMLM) depends largely on the software used to detect and accurately localize point sources. In this work, we focus on the computational aspects of super-resolution ...

Nature Publishing Group2015

Phase Retrieval by Using Transport-of-Intensity Equation and Differential Interference Contrast Microscopy

Michaël Unser, Daniel Sage, Benjamin Rappaz, Emrah Bostan, Emmanuel Augustin Julien Froustey

We present a variational reconstruction algorithm for the phase-retrieval problem by using the differential interference contrast microscopy. Principally, we rely on the transport-of-intensity equation that specifies the sought phase as the solution of a p ...

IEEE2014

Photobleaching Kinetics and Time-Integrated Emission of Fluorescent Probes in Cellular Membranes

Daniel Sage

Since the pioneering work of Hirschfeld, it is known that time-integrated emission (TiEm) of a fluorophore is independent of fluorescence quantum yield and illumination intensity. Practical implementation of this important result for determining exact prob ...

Mdpi Ag2014

Circadian Clock Characteristics Are Altered in Human Thyroid Malignant Nodules

Daniel Sage, Olivia Mariani, Daniel Andreas Schmitter

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

A 2D/3D image analysis system to track fluorescently labeled structures in rod-shaped cells: application to measure spindle pole asymmetry during mitosis

Michaël Unser, Daniel Sage, Viesturs Simanis, Daniel Andreas Schmitter, Anastasia Chasapi, Ioannis Xenarios

Background: The yeast Schizosaccharomyces pombe is frequently used as a model for studying the cell cycle. The cells are rod-shaped and divide by medial fission. The process of cell division, or cytokinesis, is controlled by a network of signaling proteins ...

Biomed Central Ltd2013

Advanced Image Processing for Biology, and the Open Bio Image Alliance (OBIA)

Michaël Unser, Daniel Sage, Ricard Delgado Gonzalo

The field of biological imaging has evolved considerably during the past decade as a result of recent (r)evolutions in fluorescence labeling and optical microscopy. Bioimage informatics has been identified as a top priority to cope with the ever-increasing ...

EUSIPCO2013

Autonomous and self-sustained circadian oscillators displayed in human islet cells

Michaël Unser, Daniel Sage, Christophe Bauer

Following on from the emerging importance of the pancreas circadian clock on islet function and the development of type 2 diabetes in rodent models, we aimed to examine circadian gene expression in human islets. The oscillator properties were assessed in i ...

Springer2013

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

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

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

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

Bi-Exponential Edge-Preserving Smoother

Philippe Thévenaz, Michaël Unser, Daniel Sage

Edge-preserving smoothers need not be taxed by a severe computational cost. We present, in this paper, a lean algorithm that is inspired by the bi-exponential filter and preserves its structure-a pair of one-tap recursions. By a careful but simple local ad ...

Institute of Electrical and Electronics Engineers2012

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