CAPSID
Computational Algorithms for Protein Structures and Interactions
Department 5: Complex Systems, Artificial Intelligence and Robotics
Head of the team: Marie-Dominique Devignes
Tel: + 33 3 83 59 20 65
Mail: marie-dominique.devignes (at) loria.fr
Introduction
The Capsid team develops algorithms and software to help study biological systems and phenomena from a structural point of view. In particular, the team aims to develop algorithms which can facilitate and improve the 3D modeling of large multi-component bio-molecular machines. While the team’s principal activity is algorithm and software development, it also tackles “real-world” biological problems through collaborations with the University of Lorraine and Nancy Hospital, and with other research teams from Inria, INRA, INSERM, and CNRS and international universities. The team is a research node of the Institut Français de Bioinformatique.
Thematic axes
- Computational modeling of protein-protein interactions (protein docking and molecular dynamics simulations)
- Classifying and mining protein structures and protein-protein interactions (knowledge discovery in biological databases)
Softwares
- Hex
- Sam
- KBDOCK
- Kpax
- EC-DomainMiner
- gEMFitter
- gEMpicker
- Parafit
Collaborations
- CHRU Nancy (France)
- ENSAIA / INRA (France)
- Institut de Génetique et de Biologie Moléculaire et Cellulaire (France)
- Collège de France (France)
- University of Boston (USA)
- Stony Brook University (USA)
Keywords
Structural bioinformatics; protein docking; protein-protein interactions; biological data mining; molecular dynamics; virtual drug screening
