Inria
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Raweb 2010
Presentation of the Team Serpico
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Serpico
Space-timE RePresentation, Imaging and cellular dynamics of molecular COmplexes
2010 Research Team Activity Report
Rennes - Bretagne-Atlantique
Field :
Computational Sciences for Biology, Medicine and the Environment
Theme : Computational Biology and Bioinformatics
Presentation of the Team
- Activity Report in
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Members
Overall Objectives
Introduction
Highlights
Scientific Foundations
Cell and Tissue Imaging facility (PICT)-Institut Curie
Objectives and motivations
Image analysis in high-throughput and multidimensional microscopy
Correlative Light (LM) and Electron (EM) Microscopy (CLEM) for spatio-temporal organization modelling of molecular species and multiscale architectures
Computational simulation and modelling of membrane transport at different spatial and temporal scales
Application Domains
Image restoration for high-resolution microscopy
Dynamic analysis and trajectory computation
Data management and storage
Multiscale image registration
Superresolution imaging
Traffic modelling, estimation and simulation
Software
PBED - Patch-based event detection
nD-SAFIR - image denoising software
FAST-2D-SAFIR software - fast denoising of large 2D images
HULLKGROUND software - Background subtraction by convex hull estimation
TubuleJ software - A plugin for automatic straightening, filtering and 3D reconstruction of microtubule cryo-EM projection views
Cryo-Seg - Segmentation of tomograms in cryo-electron microscopy
New Results
Network tomography for tracking in fluorescence microscopy imaging
Repetitive and transient event detection in fluorescence video-microscopy
3D reconstruction in cryo-Electron Microscopy
Segmentation of microtubules in cryo-Electron Tomograms
Image denoising in photoactivated localization microscopy
Tracking of actin network in asymmetrical cell division
An Anthropomorphic Polyvinyl Alcohol Brain phantom based on Colin27 for use in Multimodal Imaging
Real time ultrasound image denoising
Atlas creation of fluorescence microscopy images
Contracts and Grants with Industry
Contracts with Industry
National Initiatives
European Initiatives
Dissemination
Animation of the scientific community
Teaching
Participation in seminars, invitations, awards
Bibliography
Major publications
Publications of the year
References in notes
