SERPICO (Head) (

Multidimensional and multimodal light microscopy combined with GFP (Green Fluorescence Protein) tagging has taken a prominent role in life science research due to its ability to study in vitro and in vivo biomolecules in the cell compartments and cell domains.

The main objective of SERPICO team is to decipher the dynamic coordination and organization of molecular complexes at the single cell level. Our first aim is to foster dedicated technological and methodological developments to build an integrated imaging approach that bridges the resolution gaps between the molecule and the whole cell, including their temporal behavior. While we focus on particular biological models of endo-membrane biogenesis and trafficking in the endosomal-recycling pathway of specialized cells, most of results and developments will apply in different fields of cell and integrative biology. A global and pluridisciplinary (applied mathematics, computer science, biology, physics …) approach is necessary to identify the molecular processes resulting in pathological situations (cancer, degenerative diseases …), as well as to validate future therapeutic agents.

The SERPICO team provides computational methods and mathematical models to automatically extract, organize and model information present in temporal series of images as they are obtained in multidimensional light microscopy.


Like many other fields, the sciences are being transformed by our rapidly increasing abilities to collect, manage and understand vast amounts of data. A 2003 study estimated that the amount of data produced in the world was increasing by 50% each year. The amount of information made available through Internet search engines has grown exponentially for the last decade, and major Web search engines currently index more than 9 billion documents. However, since our brains and sensory capacities have not changed in the meantime, gaining competitive advantage from all this data depends increasingly on the effectiveness with which we support human abilities to perceive, understand, and act on it.

AVIZ is a multidisciplinary project-team that seeks to improve analysis and visualization of large, complex datasets by tightly integrating analysis methods with interactive visualization.


The expanded name for the Beagle research group is “Artificial Evolution and Computational Biology”. Our aim is to position our research at the interface between biology and computer science and to contribute new results in biology by modeling biological systems. In other words we are making artifacts – from the Latin artis factum (an entity made by human art rather than by Nature) – and we explore them in order to understand Nature. Our research is based on an interdisciplinary scientic strategy: We are developing computer science formalisms and software for complex system modeling in synergy with multidisciplinary cooperations in the area of living sciences. Thanks to computational approaches we study abstractions of biological systems and processes in order to unravel the organizational principles of cellular systems.


The research activity of Hybrid team belongs to the field of Virtual Reality and 3D interaction with Virtual Environments. Our objective is to invent novel 3D interactive techniques with virtual environments exploiting both the body and brain of the user. We focus on novel user inputs in virtual reality such as coming from full-body tracking or brain-computer interfaces. Applications of our research program are for industry (virtual prototyping), medicine (surgical simulation, rehabilitation and reeducation), design (architectural mock-up), art or videogames and entertainment. Hybrid was created in January 2013.


The MaIAGE research laboratory gathers mathematicians, computer scientists, bioinformaticians and biologists to tackle problems coming from biology, agronomy and ecology; The addressed questions may concern processes at very different levels: molecular, cellular or multicellular, individual, populations, ecosystems or landscapes.

MaIAGE develops original methods in mathematics, statistics and computer science which are generic or driven by specific biological problems. A particular attention is paid to develop and make available softwares, databases, ontologies and web services so that biologists can use them easily to analyze their data or to mine the scientific literature.


The scientific objectives of MORPHEME are to characterize and model the development and the morphological properties of biological structures from the cell to the supra-cellular scale. Being at the interface between computational science and biology, we plan to understand the morphological changes that occur during development combining in vivo imaging, image processing and computational modelling. The morphology and topology of mesoscopic structures, indeed, do have a key influence on the functional behaviour of organs. Our goal is to characterize different populations or development conditions based on the shape of cellular and supra-cellular structures, including micro-vascular networks and dendrite/axon networks. Using 2D, 2D+t, 3D or 3D+t images (acquired with confocal microscopy, video-microscopy, 2-photon microscopy or micro-tomography), we plan to extract quantitative parameters to characterize morphometry over time and in different samples. We then statistically analyse shapes and complex structures to identify relevant markers and define classification tools. Finally, we propose models explaining the temporal evolution of the observed samples. With this, we hope to better understand the development of normal tissues, but also characterize at the supra-cellular level different pathologies such as the Fragile X Syndrome, Alzheimer or diabetes.


Plants are branching living organisms that develop throughout their lifetimes. Organs are created by small embryogenetic regions at the tip of each axis, called apical meristems. In the project Virtual Plants, we are interested in studying plant apical meristem functioning and development. We believe that a detailed analysis at different temporal and spatial scales of apical meristem processes, based on advanced mathematical and computational methods and tools, will lead us to get a deeper and better understanding of plant development. In particular, we intend to exploit the new data that come from developmental biology and genetics to build up new models of plant development that integrate genetic and hormonal mechanisms.


PARIETAL is an INRIA Research Team within the Neurospin platform of CEA Institute. It is located in Saclay, in Neurospin building.

Neurospin is a platform for the acquisition of neuroimaging data based on high fields MRI scanners, which are the most powerful ones in France today. The scanners are used to acquire high-quality data, whose resolution is also optimized (about 1mm).

Parietal aims at addressing several issues raised by the analysis of this data, in order to benefit from the potential of this data. In this perspective, Parietal is involved in the introduction of novel statistical and geometrical analysis tools which enable neuroscientists to better understand human brain structure, variability and function.

Such tools are especially needed to describe and understand the sequence of phenomena which constitute brain activity, which are now actively investigated throughout the world. They also aims at analysing inter-individual differences , with a special interest in genetic factors, which in turns has strong implications in the understanding of brain diseases.

Parietal gives a free access to its tools through the scikit learn (machine learning), joblib (scientific computing in Python), nilearn and mne-python (functional neuroimaging) software.


The “Space-time Imaging of Cellular Dynamics and Organelles and Endomembranes” team is a research team which develops approaches in order to decipher the dynamic coordination and organization of molecular complexes at the single cell level. It focuses on the cellular and molecular mechanisms of membrane traffic involved in the exocytic pathway and the biogenesis of specialized organelles in epidermal cells with main functions in the immune system and in skin pigmentation and photoprotection.

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