Jean-Christophe Olivo-Marin is the Head of the Biological Image Analysis unit and the director of the institute Carnot Pasteur Microbes et Santé. He chaired the Cell Biology and Infection Department (2010-2014) and was CTO and Director of the Center for Innovation and Technological Research (2015-2018). Previous to that, he was a staff scientist at the European Molecular Biology Laboratory, Heidelberg, from 1990 to 1998. He received the PhD and HDR degrees in optics and signal processing from the Institut d’Optique Théorique et Appliquée, University of Paris-Orsay, France. He is a Fellow of IEEE and of SPIE, an IEEE Signal Processing Society Distinguished Lecturer, and was Chair of the IEEE SPS Bio Imaging and Signal Processing Technical Committee (BISP-TC). His research interests are in image analysis of multidimensional microscopy images, computer vision and motion analysis for cellular dynamics, and in mathematical approaches for biological imaging.
INCEPTION – Institut Convergence for the study of Emergence of Pathology Through Individuals and Populations
IINCEPTION Goal The Inception aims to develop a core structure to mobilize data resources, numerical sciences, and fundamental experimental biology in various health issues (Official website here: https://www.inception-program.fr/en). The inception program uses Integrative Biology, […]
The institut Carnot Pasteur MS
Carnot, label of excellence Founded in 2006, the Carnot Label, granted by the French government, was designed to develop partnership-based research, meaning research conducted by public laboratories in partnership with socio-economic players, primarily industry […]
LabEx IBEID – Integrative Biology of Emerging Infectious Diseases
Presentation The aim of the Integrative Biology of Emerging Infectious Diseases (IBEID) project, coordinated by Professors Philippe Sansonetti and Pascale Cossart and currently coordinated by Carla Saleh and Philippe Bastin, is to develop a […]
Next generation of Structured Illumination Microscopy (SIM) for biological imaging
Machine learning methods to predict cancerous areas from Full Field Optical Coherence Tomography (FFOCT) and Dynamical FFOCT images
Statistical analysis of spatial coupling in bioimaging with SODA
To understand protein functions and molecular network organisation, it is important to determine the localisation of proteins at subcellular level. The in cellulo probing of molecular assemblies is usually performed with microscopy techniques which […]
Endothelium disruption by toxin-induced transcellular tunnels
Crossing of the epithelium and endothelium barriers by pathogens and their toxins represents essential steps in pejorative evolution of infections. We have discovered that several exotoxins from S. aureus and C. botulinum disrupt epithelium and endothelium barriers by targeting […]
DIM ELICIT – Domain of Main Interest “Empowering LIfe sCiences with Innovative Technologies”
The DIM ELICIT (« Empowering LIfe sCiences with Innovative Technologies ») is the network of innovative technologies for biology in Ile-de-France region. Co-leaded by the Institut Pierre Gilles de Gennes for microfluidics (IPGG) and […]
Welcome to the club! Welcome to Microfluidics@Pasteur! Our goal is to serve as the major entry point to all the scientists on the campus (beginners and experts) interested in undertaking projects where microfluidics is involved. Our […]
Protected: Pasteur Human Genome
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Compressive Sensing in biological imaging
We are investigating a new global framework for smart acquisition methods in biological imaging whereby it is possible with mathematical tools to recover a high quality image from very fewer samples than the full […]
Imaging and mathematical modelling of cell morphology and motility
Elucidating the mechanisms underlying cell deformation and motility is a topic of major interest in cell biology, for they are strongly involved in cell development, immune responses, cancer and infectious diseases. This projects focuses on the […]
Multiple spot tracking in 3D+t microscopy
We have developed a method to perform the detection and the tracking of microscopic spots directly on four dimensional (3D+t) image data. It extends our previous work by being able to detect with high […]
Icy: an open community platform for bioimage informatics
We started a project for a new open-source image processing software platform dedicated to community work (de Chaumont et al, Nature Methods 2012). It includes a flexible framework designed around and with a native […]
2023JDLL: A library to run Deep Learning models on Java bioimage informatics platforms, Electrical Engineering and Systems Science > Image and Video Processing.
2023Automatic diagnosis and classification of breast surgical samples with dynamic full-field OCT and machine learning, Journal of Medical Imaging, Vol. 10, Issue 3, 034504.
2023Live Cells Imaging and Comparative Phosphoproteomics Uncover Proteins from the Mechanobiome in Entamoeba histolytica., Int J Mol Sci 2023 May; 24(10): .
2023From Nano to Macro: Overview of the IEEE Bio Image and Signal Processing Technical Committee, .
2022From Nano to Macro: Overview of the IEEE Bio Image and Signal Processing Technical Committee, Electrical Engineering and Systems Science.
20224D live imaging and computational modeling of a functional gut-on-a-chip evaluate how peristalsis facilitates enteric pathogen invasion., Science advances.
2022Smart Learning of Click and Refine for Nuclei Segmentation on Histology Images, 2022 IEEE International Conference on Image Processing (ICIP).
2022PDE-Constrained Optimization for Nuclear Mechanics, 2022 IEEE International Conference on Image Processing (ICIP).
2022Domain Adapted Multi-task Learning For Segmenting Amoeboid Cells in Microscopy, IEEE Transactions on Medical Imaging, 2022.
2022Tracking receptor motions at the plasma membrane reveals distinct effects of ligands on CCR5 dynamics depending on its dimerization status., Elife 2022 Jul; 11(): .
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