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Journal Article
Nury H., Van Renterghem C., Weng Y., Tran A., Baaden M., Dufresne V., Changeux J.-P., Sonner J.M, Delarue M., Corringer P.-J..  2011.  X-ray structures of general anaesthetics bound to a pentameric ligand-gated ion channel. Nature. 469:428–431.
Zhang Y., Baaden M., Yan J., Shao J., Qiu S., Wu Y., Ding Y..  2010.  The molecular recognition mechanism for superoxide dismutase presequence binding to the mitochondrial protein import receptor Tom20 from Oryza sativa involves an LRTLA motif. J. Phys. Chem. B. 114:13839–13846.
Sterpone F., Melchionna S., Tuffery P, Pasquali S., Mousseau N., Cragnolini T., Chebaro Y, St-Pierre J.-F., Kalimeri M., Barducci A. et al..  2014.  The OPEP protein model: from single molecules, amyloid formation, crowding and hydrodynamics to DNA/RNA systems. Chem. Soc. Rev.. 43:4871–4893.
Prevost M., Sauguet L., Nury H., Van Renterghem C., Huon C., Poitevin F., Baaden M., Delarue M., Corringer P.-J..  2012.  A novel Locally Closed Conformation of a Bacterial Pentameric Proton-gated Ion Channel. Nature Structural & Molecular Biology.
Laurent B., Murail S., Da Silva F., Corringer P.-J., Baaden M..  2012.  Modeling complex biological systems: From solution chemistry to membranes and channels. Pure Appl. Chem.. ASAP
Darre L., Tek A., Baaden M., Pantano S..  2012.  Mixing atomistic and coarse grain solvation models for MD simulations: let WT4 handle the bulk. Jctc.
Tek A., Baaden M., Férey N., Bourdot P..  2013.  MANHaptic: A Haptic Adaptive Method for Precise Manipulation, Assembly \and Navigation. International Journal on Human Machine Interaction. 1:60–67.
Dreher M., Piuzzi M., Turki A., Chavent M, Baaden M., Férey N., Limet S., Raffin B., Robert S..  2013.  Interactive Molecular Dynamics: Scaling up to Large Systems.. Procedia Comput. Sci.. 18:20–29.
Gueroult M., Picot D., Abi-Ghanem J., Hartmann B., Baaden M..  2010.  How cations can assist DNase I in DNA binding and hydrolysis. Plos Comput. Biol.. 6:e1001000.
Chavent M, Lévy B., Krone M., Bidmon K., Nominé J.P, Ertl T., Baaden M..  2011.  GPU-powered tools boost molecular visualization. Briefings Bioinf.. 12:689–701.
Chavent M, Vanel A., Tek A., Lévy B., Robert S., Raffin B., Baaden M..  2011.  GPU-accelerated atom and dynamic bond visualization using HyperBalls: a unified algorithm for balls, sticks and hyperboloids. J. Comput. Chem.. 32:2924–2935.
Catoire L.J, Damian M., Baaden M., Guittet E., Banères J.-L..  2011.  Electrostatically–driven fast association and perdeuteration allow transferred cross–relaxation detection for G protein–coupled receptor ligands with equilibrium dissociation constants in the high–to–low nanomolar range. J Biomolecular Nmr. 50:191–5.
Chavent M, Baaden M., Hénon E., Antonczak S..  2012.  Bientôt dans votre amphithéâtre, la chimie fera son cinéma. De la bonne utilisation des ressources informatiques pour l’enseignement : visualisation moléculaire, illustration de processus chimiques et de modèles physiques. Actualité Chimique. 363
Conference Paper
Férey N., Delalande O., Grasseau G., Baaden M..  2008.  A VR Framework for Interacting with Molecular Simulations. Symposium on Virtual Reality Software and Technology (ACM-VRST 2008). :91–94.
Doutreligne S., Cragnolini T., Pasquali S., Derreumaux P., Baaden M..  2014.  UnityMol: Interactive scientific visualization for integrative biology. Large Data Analysis and Visualization (LDAV), 2014 IEEE 4th Symposium on. :109–110.
Doutreligne S., Gageat C., Cragnolini T., Taly A, Pasquali S., Derreumaux P., Baaden M..  2015.  UnityMol: interactive and ludic visual manipulation of coarse-grained RNA and other biomolecules. Virtual and Augmented Reality for Molecular Science (VARMS@IEEEVR), 2015 IEEE 1st International Workshop on. :1–6.
Baaden M., Berny F., Muzet N., Schurhammer R., Wipff G..  2000.  Separation of radioactive cations by liquid-liquid extraction: computer simulations of water / oil solutions of salts and ionophores. Proceedings of the Euradwaste 1999 conference. :390–393.
Chavent M, Vanel A., Lévy B., Raffin B., Tek A., Baaden M..  2010.  A Rendering Method for Small Molecules up to Macromolecular Systems: HyperBalls Accelerated by Graphics Processors. JOBIM.
Trellet M., Férey N., Baaden M., Bourdot P..  2013.  Navigation guidée par le contenu pour l'exploration moléculaire.. Actes de l'AFRV.
Trellet M., Férey N., Baaden M., Bourdot P..  2016.  Interactive visual analytics of molecular data in immersive environments via a semantic definition of the content and the context. 2016 Workshop on Immersive Analytics (IA).
Férey N., Delalande O., Grasseau G., Baaden M..  2008.  From Interactive to Immersive Molecular Dynamics. Workshop on Virtual Reality Interaction and Physical Simulation (VRIPHYS 08 - Eurographics). :89–96.