Publications

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Author Title [ Type(Desc)] Year
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Book
Lavery R, Sacquin-Mora S.  2009.  Coarse-graining protein mechanics. Coarse-Graining of Condensed Phase and Biomolecular Systems
Book Chapter
Parody-Morreale A., Robert C.H, Gill S.J.  1987.  Calorimetric analysis of oxygen binding to lobster hemocyanin. Invertebrate Oxygen Carriers.
Smith JC, Cournia Z, Taly A, Tournier AL, Mihailescu D, G Ullmann M.  2004.  Conformational transitions in proteins and membranes. Novel Approaches to the Structure and Dynamics of Liquids: Experiments, Theories and Simulations. :485–502.
Conference Paper
Gerencser L, Taly A, Baciou L, Maroti P, Sebban P.  2002.  Cd2+ binding effect on bacterial reaction center mutants: The proton penetration involves interdependent pathways. BIOPHYSICAL JOURNAL. 82:518A-518A.
Nasica-Labouze J, Meli M, Derreumaux P, Colombo G, Mousseau N.  2011.  Characterization of the Aggregation Pathway for a 20-mer of GNNQQNY using Coarse-Grained and All-Atom Representations. Biophys. J.. 100:BiophysSoc.
Cragnolini T, Laurin Y, Derreumaux P, Pasquali S.  2014.  Coarse-Grain RNA Folding: Towards More Complex Structures. Biophys. J.. 106:283A.
Gros P.-E., Hérisson J., Férey N., Gherbi R..  2004.  Combining Applications and Databases Integration Approaches in a Common Distributed Genomic Platform. International CODATA Conference, The Information Society: New Horizons for Science.
Baaden M.  2020.  Computer Simulations Provide Guidance for Molecular Medicine Through Insights on Dynamics and Mechanisms at the Atomic Scale. 7th International Conference on the Development of Biomedical Engineering in Vietnam (BME7).
Trellet M., Férey N., Baaden M, Bourdot P..  2015.  Content and task based navigation for structural biology in 3D environments. Virtual and Augmented Reality for Molecular Science (VARMS@IEEEVR), 2015 IEEE 1st International Workshop on. :31–36.
Trellet M., Férey N., Baaden M, Bourdot P..  2014.  Content-guided Navigation in Multimeric Molecular Complexes. {BIOIMAGING} 2014 - Proceedings of the International Conference on Bioimaging, ESEO, Angers, Loire Valley, France, 3-6 March, 2014. :76–81.
Journal Article
Francia F., Malferrari M., Sacquin-Mora S, Venturoli G..  2009.  Charge Recombination Kinetics and Protein Dynamics in Wild Type and Carotenoid-less Bacterial Reaction Centers: Studies in Trehalose Glasses. J. Phys. Chem. B. 113:10389–1398.
Baaden M, Marrink S.J.  2013.  Coarse-grain modelling of protein-protein interactions. Curr. Opin. Struct. Biol.. 23:878–886.
Durrieu M.P, Bond P.J, Sansom M.S, Lavery R., Baaden M.  2009.  Coarse-grain simulations of the R-SNARE fusion protein in its membrane environment detect long-lived conformational sub-states. Chemphyschem. 10:1548–1552.
Timsit Y, Allemand F., Chiaruttini C., Springer M..  2006.  Coexistence of two protein folding states in the crystal structure of ribosomal protein L20. Embo Rep.. 7:1013–1018.
Guerlet G., Taly A, L. de Carvalho P, Martz A., Jiang R., Specht A., Le Novere N., Grutter T..  2008.  Comparative models of P2X2 receptor support inter-subunit ATP-binding sites. Biochem. Biophys. Res. Commun.. 375:405–409.
Delalande O., Ferey N., Grasseau G., Baaden M.  2009.  Complex molecular assemblies at hand via interactive simulations. J. Comput. Chem.. 30:2375–2387.
Timsit Y.  2001.  Convergent evolution of MutS and topoisomerase II for clamping DNA crossovers and stacked Holliday junctions. J. Biomol. Struct. Dyn.. 19:215–218.
Timsit Y, Moras D..  1996.  Cruciform structures and functions. Q. Rev. Biophys.. 29:279–307.
Timsit Y, Moras D..  1992.  Crystallization of DNA. Meth. Enzymol.. 211:409–429.
Lambert B, Jacques V, Shivanyuk A, Matthews SE, Tunayar A, Baaden M, Wipff G, Bohmer V, Desreux JF.  2000.  Calix[4]arenes as selective extracting agents. An NMR dynamic and conformational investigation of the lanthanide(III) and thorium(IV) complexes. Inorg. Chem.. 39:2033–2041.
Parody-Morreale A, Robert CH, Bishop GA, Gill SJ.  1987.  Calorimetric studies of oxygen and carbon monoxide binding to human hemoglobin. Sequential binding heats for oxygen. J. Biol. Chem.. 262:10994–10999.
Doyle ML, Di Cera E, Robert CH, Gill SJ.  1987.  Carbon dioxide and oxygen linkage in human hemoglobin tetramers. J. Mol. Biol.. 196:927–934.
Li H, Luo Y, Derreumaux P, Wei G.  2011.  Carbon Nanotube Inhibits the Formation of beta-Sheet-Rich Oligomers of the Alzheimer’s Amyloid-beta(16-22) Peptide. Biophys. J.. 101:2267–2276.
Mazur AK, Haser R., Payan F..  1994.  The catalytic mechanism of {$\alpha$}-amylases based upon enzyme crystal structures and model building calculations. Biochem. Biophys. Res. Commun.. 204:297–302.
Baaden M, Wipff G, Yaftian MR, Burgard M, Matt D.  2000.  Cation coordination by calix[4]arenes bearing amide and/or phosphine oxide pendant groups: how many arms are needed to bind Li+ vs. Na+? A combined NMR and molecular dynamics study Journal of the Chemical Society-perkin Transactions 2. :1315–1321.

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