Marc Baaden
Publications
Publications
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Escape from PharmaZ: a Game to Boost Pharmacophore Learning through Immersive Augmented RealityGames and Learning Alliance 13th International Conference, GALA 2024, Nov 2024, Berlin, Germany. pp.317-327, ⟨10.1007/978-3-031-78269-5_30⟩ |
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UnityMol-Lite: Cross-platform Collaboration and Interactive Methods for Molecular Modeling in XREuroXR 2024: Proceedings of the 21st EuroXR International Conference, Patrick Bourdot; Mónica González; Jerome Perret; Gabriel Zachmann; Arcadio Reyes-Lecuona, Nov 2024, Athens, Greece |
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GazeMolVR: Sharing Eye-Gaze Cues in a Collaborative VR Environment for Molecular VisualizationInternational Conference on Mobile and Ubiquitous Multimedia (MUM '24), December 1--4, 2024, Stockholm, Sweden, Dec 2024, Stockholm (Suède), Sweden. ⟨10.1145/3701571.3701599⟩ |
Molecular Modeling of NOX5 protein: Impact of the Initial Structure and Membrane compositionRencontres ThéMoSiA – RCTF2024, Jun 2024, Rouen (FR), France |
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Molecular Modeling of NOX5 protein: Impact of the Initial Structure and Membrane compositionNOX-ROS 2023, Nov 2023, Orsay, France |
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Simulation moléculaire du transfert d’électron transmembranaire dans NOX53ème réunion pleinière du GDR NADPH Oxydase et Stress oxydant, Nov 2022, Aussois (France), France |
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QuickSES: A Library for Fast Computation of Solvent Excluded SurfacesMolVa: Workshop on Molecular Graphics and Visual Analysis of Molecular Data 2019, Jun 2019, Porto, Portugal. ⟨10.2312/molva.20191095⟩ |
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Molecular Visualization of Computational Biology Data: A Survey of SurveysEuroVis 2017 - Short Papers, Jun 2017, Barcelone, Spain. ⟨10.2312/eurovisshort.20171146⟩ |
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Interactive Visual Analytics of Molecular Data in Immersive Environments via a Semantic Definition of the Content and the ContextIEEE VR 2016/VR 2016 Workshop on Immersive Analytics, Mar 2016, Greenville, SC, United States. pp.48-53, ⟨10.1109/IMMERSIVE.2016.7932383⟩ |
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UnityMol: interactive and ludic visual manipulation of coarse-grained RNA and other biomoleculesVirtual and Augmented Reality for Molecular Science (VARMS@IEEEVR), 2015 IEEE 1st International Workshop on, Mar 2015, Arles, France. pp.1--6, ⟨10.1109/VARMS.2015.7151718⟩ |
Content and task based navigation for structural biology in 3D environmentsVirtual and Augmented Reality for Molecular Science (VARMS@IEEEVR), 2015 IEEE 1st International Workshop on, Mar 2015, Arles, France. pp.31--36, ⟨10.1109/VARMS.2015.7151726⟩ |
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UnityMol: Interactive scientific visualization for integrative biologyIEEE 4th Symposium on Large Data Analysis and Visualization (LDAV) 2014, 2014, Paris, France. pp.109--110 |
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Content-guided Navigation in Multimeric Molecular ComplexesBIOIMAGING 2014 - Proceedings of the International Conference on Bioimaging, ESEO, Angers, Loire Valley, France, 3-6 March, 2014, 2014, Angers, France. pp.76--81, ⟨10.5220/0004914300760081⟩ |
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Molecular Modeling of Hydrogenase Enzymes for Biofuel Cell Design57th Annual Meeting of the Biophysical-Society, Feb 2013, Philadelphia, United States. pp.335a, ⟨10.1016/j.bpj.2012.11.1864⟩ |
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Navigation guidée par le contenu pour l'exploration moléculaire.Journées de l’Association Française de Réalité Virtuelle (AFRV), 2013, Laval, France |
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Interactive Molecular Dynamics: Scaling up to Large SystemsInternational Conference on Computational Science, ICCS 2013, Jun 2013, Barcelone, Spain |
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BioSpring: an interactive and multi-resolution software for flexible docking and for mechanical exploration of large biomolecular assembliesJOBIM 2012 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2012, Rennes, France. pp.433-434 |
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Illustration moléculaire en Chimie et Biologie : exemples, état de l’art et perspectivesDu réel à l'image, Congrès de l’AEIMS, Nov 2011, Strasbourg, France. pp.74-78 |
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Molecular Illustration in Chemistry and Biology: examples, state-of-art and outlookReality Through Image, AEIMS Congress, Nov 2011, Strasbourg, France. pp.74-78 |
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FvNano: A Virtual Laboratory to Manipulate Molecular Systems1st IEEE symposium on biological data visualization, @ ieee visweek, 2011, Oct 2011, Providence, RI, United States. pp.136 |
A Rendering Method for Small Molecules up to Macromolecular Systems: HyperBalls Accelerated by Graphics ProcessorsJournées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM'10), 2010, Unknown, France |
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A VR framework for interacting with molecular simulationsthe 2008 ACM symposium, Oct 2008, Bordeaux, France. pp.91-94, ⟨10.1145/1450579.1450598⟩ |
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From Interactive to Immersive Molecular DynamicsWorkshop in Virtual Reality Interactions and Physical Simulation "VRIPHYS" (2008), 2008, Grenoble, France. pp.89-96, ⟨10.2312/PE/vriphys/vriphys08/089-096⟩ |
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Atomistic Modeling of the Membrane-Embedded Synaptic Fusion Complex: a Grand Challenge Project on the DEISA HPC InfrastructureParallel Computing: Architectures, Algorithms and Applications, Sep 2007, Julich, Germany. pp.729-736 |
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Separation of radioactive cations by liquid-liquid extraction: computer simulations of water / oil solutions of salts and ionophoresEuradwaste 1999: radioactive Waste Management Strategies and Issues, Fifth European Commission Conference on Radioactive Waste Management and Disposal and Decommissioning, Nov 1999, Luxembourg, Luxembourg. pp.390-393 |
Between two walls: Modeling the adsorption behavior of redox enzymes on bare and SAM-functionalised gold surfacesXXIIIème congrès du GGMM, May 2023, Toulouse, France |
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Structure-Function analysis of the yeast mitofusin Fzo122ème congrès du Groupe Français de Bioenergetique, Sep 2023, Bedoin, France |
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Molecular Modeling of NOX5 protein: Impact of the Initial Structure and Membrane compositionGGMM 2023, May 2023, Toulouse, France |
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Etude dynamique théorique de la structure de NOX53ème réunion pleinière du GDR NADPH Oxydase et Stress oxydant, Nov 2022, Aussois (FR), France |
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A Multimodal VR Framework for Interactive Molecular SimulationsEuroVR-EVE 2010, Nov 2010, Orsay, France |
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Highlights from the Faraday Discussion on Artificial Water Channels, Glasgow, UKChemical Communications, 55 (27), pp.3853-3858, 2019, ⟨10.1039/c9cc90112d⟩ |
Visualization of Biomolecular Structures: State of the ArtEuroVisSTAR2015, The Eurographics Association, 2015, Eurographics Conference on Visualization (EuroVis) - STARs, ⟨10.2312/eurovisstar.20151112⟩ |
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Modeling complex biological systems: From solution chemistry to membranes and channelsPure and Applied Chemistry, 85 (1), pp.1-13, 2013, ⟨10.1351/PAC-CON-12-04-10⟩ |
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La réalité virtuelle au laboratoire de Biochimie Théorique - toucher, déformer et assembler des molécules du bout des doigtsJournal de l'AFRV, 10, pp.4-5, 2011 |
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Itinéraires Bis2009, Connaissance et savoirs, 978-2-7539-0164-3 |
5. Les supercalculateurs et l'intelligence artificielle révèlent le monde moléculaireLe calcul pour les Big Data et l’Intelligence Artificielle, pp.138-141, A paraître |
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Interactive Molecular DynamicsComprehensive Computational Chemistry, 3, Elsevier, pp.454-474, 2024, ⟨10.1016/B978-0-12-821978-2.00115-X⟩ |
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Stability and structure of adaptive self-organized supramolecular artificial water channels in lipid bilayersJ.M. Abadie, M., Pinteala, M., Rotaru, A. New Trends in Macromolecular and Supramolecular Chemistry for Biological Applications, Springer, Cham., pp.51-63, 2021, 978-3-030-57455-0. ⟨10.1007/978-3-030-57456-7_3⟩ |
Voir et manipuler les molécules. Du virtuel au réelC.M. Pradier, O. Parisel, F. Teyssandier. Etonnante chimie. Découvertes et promesses du XXIè siècle, CNRS Editions, pp.182-187, 2021, 978-2-271-13652-7 |
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Computer Simulations Provide Guidance for Molecular Medicine through Insights on Dynamics and Mechanisms at the Atomic ScaleIn: Van Toi V., Le T., Ngo H., Nguyen TH. (eds). 7th International Conference on the Development of Biomedical Engineering in Vietnam (BME7) Translational Health Science and Technology for Developing Countries, 69, Springer, pp.261-265, 2020, IFMBE Proceedings, ⟨10.1007/978-981-13-5859-3_47⟩ |
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Using Computer Simulations and Virtual Reality to Understand, Design and Optimize Artificial Water ChannelsLecture Notes in Bioengineering / Advances in Bionanomaterials II Selected Papers from the 3rd International Conference on Bio and Nanomaterials, BIONAM 2019, September 29 – October 3, 2019, pp.78-99, 2020, ⟨10.1007/978-3-030-47705-9_8⟩ |
The modelling and enhancement of water hydrodynamics: general discussionFaraday Discussions, 209, pp.273-285, 2018, ⟨10.1039/C8FD90021C⟩ |
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Foundations of Biomolecular Simulations: A Critical Introduction to Homology Modeling, Molecular Dynamics Simulations, and Free Energy Calculations of Membrane ProteinsMembrane Proteins Production for Structural Analysis, Springer New York, pp.347--392, 2014, 978-1-4939-0661-1. ⟨10.1007/978-1-4939-0662-8_13⟩ |
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Advances in Human-Protein Interaction - Interactive and Immersive Molecular SimulationsWeibo Cai and Hao Hong. Biochemistry, Genetics and Molecular Biology " "Protein-Protein Interactions - Computational and Experimental Tools", InTech, pp.27-65, 2012, 978-953-51-0397-4. ⟨10.5772/36568⟩ |
Physicochimie : molécules, milieuxRAPPORT DE CONJONCTURE 2010 du Comité national de la recherche scientifique, CNRS Editions, pp.243-263, 2010, 978-2-271-07263-4 |
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Chapter 9. Molecular Dynamics Studies of Outer Membrane Proteins: a Story of BarrelsMolecular Simulations and Biomembranes, Royal Society of Chemistry, pp.225-247, 2010, RSC Biomolecular Sciences, ⟨10.1039/9781849732154-00225⟩ |
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There's plenty of room in the middle: Multiscale Modelling of Biological SystemsAlexandre G. de Brevern. Recent Advances in Structural Bioinformatics, Research Singpost, pp.173-196, 2007, 978-81-309-0208-4 |
Interfacial Features of Assisted Liquid-Liquid Extraction of Uranyl and Cesium Salts: A Molecular Dynamics InvestigationCalixarenes for Separations, 757, American Chemical Society, pp.71-85, 2000, ACS Symposium Series, ⟨10.1021/bk-2000-0757.ch006⟩ |
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Vitamins : Visual and In Situ Analytics for Molecular Interactive Simulation2014 |
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Visualiser, toucher, déformer et assembler des nano-objets du bout des doigtsLes nanotechnologies : un nouveau paradigme, Les Cahiers de l’ANR - n°5, 2012, pp.47 |
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Toucher, déformer et assembler des molécules du bout des doigtsLe calcul intensif: technologie clé pour le futur, Les Cahiers de l'ANR - n° 3, 2010, pp.71 |
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Molecular Modeling with the ChemOffice Ultra 4.5 Program Suite2000 |
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A large disordered region confers a wide spanning volume to vertebrate Suppressor of Fused as shown in a trans-species solution study2023 |
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Etudes de molécules extractantes en solution et aux interfaces liquide-liquide : aspects structuraux et mécanistiques des effets de synergieAutre. Université Louis Pasteur - Strasbourg I, 2003. Français. ⟨NNT : ⟩ |
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Simulations numériques de systèmes biologiques complexes : dynamique, structure et fonction de transporteurs, canaux et enzymesSciences pharmaceutiques. Université Paris-Diderot - Paris VII, 2010 |