Jean-Christophe Olivo-Marin is the Head of the BioImage 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’s goal is to develop a core structure to mobilize data resources, numerical sciences, and fundamental experimental biology in a range of health issues (Official website here : https://www.inception-program.fr/en). Inception program […]
The Quantitative Biology program of the Institut Pasteur is intended to facilitate research and education at the interface of biology and the more quantitative sciences. One of the major aims of Quantitative Biology is thus to […]
Institut Carnot Pasteur MS
The Carnot Label Carnot label is granted to public research structures, showing high level R&D competencies dedicated to fostering innovation with industrial partners. The Carnot Institutes (IC) are funded to conduct upstream research capable […]
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, is to develop a structure to anticipate and tackle emerging infectious diseases (EIDs). […]
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 – Domaine d’Intérêt Majeur “Empowering LIfe sCiences with Innovative Technologies”
Depuis le 15 décembre 2016, le DIM ELICIT est labellisé Domaines d’Intérêt Majeur par le Conseil régional d’Ile-de-France pour la période 2017-2020. Co-coordonné par l’Institut Pierre Gilles de Gennes (IPGG, Patrick Tabeling) et l’Institut […]
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
There is no excerpt because this is a protected post.
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 […]
Color image analysis in histology
To characterize histopathological images stained by different colorations, we have developed a system to analyse color images. Images are segmented by a split and merge approach and by color quantization, to reduce color classes. We have also defined a criterion to choose […]
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 […]
2021Bioimage Analysis and Cell Motility, Patterns, 2021.
2021Aspergillus fumigatus, One Uninucleate Species with Disparate Offspring., J Fungi (Basel) 2021 Jan; 7(1): .
2020Missing Self-Induced Activation of NK Cells Combines with Non-Complement-Fixing Donor-Specific Antibodies to Accelerate Kidney Transplant Loss in Chronic Antibody-Mediated Rejection, JASN November 2020.
2020Cell Tracking Profiler – a user-driven analysis framework for evaluating 4D live-cell imaging data, J Cell Sci . 2020 Nov 23;133(22):jcs241422.
2020Evaluating the Stability of Spatial Keypoints via Cluster Core Correspondence Index, IEEE Transactions on Image Processing, vol. 30, pp. 386-401, 2021.
2020Modeling Shape Dynamics During Cell Motility in Microscopy Videos, 2020 IEEE International Conference on Image Processing (ICIP), Abu Dhabi, United Arab Emirates, 2020, .
2020E-cadherin focuses protrusion formation at the front of migrating cells by impeding actin flow, Nat Commun. 2020.
2020Human intestinal models to study interactions between intestine and microbes, Open Biol. 2020 Oct;10(10):200199.
2020Highly performing point-of-care molecular testing for SARS-CoV-2 with RNA extraction and isothermal amplification., medRxiv 2020.08.01.20166538.
2020Insights into amebiasis using a human 3D-intestinal model., Cell Microbiol 2020 Aug; 22(8): e13203.
+View full list of publications