Publications

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2006
Qiu Y, Zhao Y, Becker M, John S, Parekh BS, Huang S, Hendarwanto A, Martinez ED, Chen Y, Lu H et al..  2006.  HDAC1 acetylation is linked to progressive modulation of steroid receptor-induced gene transcription.. Mol. Cell. 22:669–679.
Grutter T., de Carvalho L.P, Dufresne V., Taly A, Changeux J-P.  2006.  Identification of two critical residues within the Cys-loop sequence that determine fast-gating kinetics in a pentameric ligand-gated ion channel. J. Mol. Neurosci.. 30:63–64.
Taly A, Corringer P.J, Grutter T., L. de Carvalho P, Karplus M., Changeux J-P.  2006.  Implications of the quaternary twist allosteric model for the physiology and pathology of nicotinic acetylcholine receptors. Proc. Natl. Acad. Sci. U.s.a.. 103:16965–16970.
Férey N, Gros P.-E., Gherbi R..  2006.  An Immersive Visualization and Interaction Paradigm for Genomic Databases Exploration. Mediterranean Journal of Computers and Networks. 2:118–124.
Férey N, Gros P.-E., Gherbi R..  2006.  An Immersive Visualization and Interaction Paradigm for Genomic Databases Exploration. Mediterranean Journal of Computers and Networks. 2:118–124.
Taly A, Corringer P-J, Grutter T, De Carvalho LPrado, Karplus M, Changeux J-P.  2006.  Implications of the quaternary twist allosteric model for the physiology and pathology of nicotinic acetylcholine receptors. Proceedings of the National Academy of Sciences. 103:16965–16970.
Nguyen PHoang, Gorbunov RD, Stock G.  2006.  Photoinduced conformational dynamics of a photoswitchable peptide: A nonequilibrium molecular dynamics simulation study. Biophys. J.. 91:1224–1234.
Gelly J.-C, Etchebest C., Hazout S., de Brevern A.G.  2006.  Protein Peeling 2: a web server to convert protein structures into series of protein units. Nucleic Acids Res.. 34:W75-W78.
Gelly JC, de Brevern AG, Hazout S.  2006.  `Protein Peeling': an approach for splitting a 3D protein structure into compact fragments. Bioinformatics. 22:129–133.
Férey N, Gherbi R..  2006.  Visual Mining for Microarray Knowledge Discovery. International Conference on Information & Communication Technologies: from Theory to Applications (ICTTA 2006 - IEEE).
Matte-Tailliez O., Hérisson J., Férey N, Magneau O., Gros P.-E., Képès F., Gherbi R..  2006.  Yeast Naked DNA Spatial Organization Predisposes to Transcriptional Regulation. International Conference on Computational Science and its Applications (ICCSA 2006). 3984:222–231.
Matte-Tailliez O., Hérisson J., Férey N, Magneau O., Gros P.-E., Képès F., Gherbi R..  2006.  Yeast Naked DNA Spatial Organization Predisposes to Transcriptional Regulation. International Conference on Computational Science and its Applications (ICCSA 2006). 3984:222–231.
2005
Grutter T., L. de Carvalho P, Virginie D., Taly A, Fischer M., Changeux J-P.  2005.  A chimera encoding the fusion of an acetylcholine-binding protein to an ion channel is stabilized in a state close to the desensitized form of ligand-gated ion channels. C. R. Biol.. 328:223–234.
Johnson CN, Adkins NL, Georgel P.  2005.  Chromatin remodeling complexes: ATP-dependent machines in action.. Biochem. Cell Biol.. 83:405–417.
Gelly JC, Chiche L, Gracy J.  2005.  EvDTree: structure-dependent substitution profiles based on decision tree classification of 3D environments. Bmc Bioinf.. 6
Gelly JC, Chiche L, Gracy J.  2005.  EvDTree: structure-dependent substitution profiles based on decision tree classification of 3D environments. Bmc Bioinf.. 6
Férey N, Gros P.-E., Hérisson J., Gherbi R..  2005.  Immersive graph-based visualization and exploration of biological data relationships. Data Sci. J.. 4:189–194.
Férey N, Gros P.-E., Hérisson J., Gherbi R..  2005.  Immersive graph-based visualization and exploration of biological data relationships. Data Sci. J.. 4:189–194.
Tuffery P, Guyon F, Derreumaux P.  2005.  Improved greedy algorithm for protein structure reconstruction. J. Comput. Chem.. 26:506–513.
Grutter T., de Carvalho L.P, Dufresne V., Taly A, Edelstein S.J, Changeux J-P.  2005.  Molecular tuning of fast gating in pentameric ligand-gated ion channels. Proc. Natl. Acad. Sci. U.s.a.. 102:18207–18212.
Pasquali S., Gan H.H., Schlick T..  2005.  Modular RNA architecture revealed by computational analysis of existing pseudoknots and ribosomal RNAs. Nuc. Acids Res.. 33:1384–1398.
Taly A, Delarue M., Grutter T., Nilges M., Le Novere N., Corringer P.J, Changeux J-P.  2005.  Normal mode analysis suggests a quaternary twist model for the nicotinic receptor gating mechanism. Biophys. J.. 88:3954–3965.
Mousseau N, Derreumaux P, Gilbert G.  2005.  Navigation and analysis of the energy landscape of small proteins using the activation-relaxation technique. Phys. Biol.. 2:S101-S107.
Férey N, Gros P.-E., Hérisson J., Gherbi R..  2005.  Visual data mining of genomic databases by immersive graph-based exploration. international Conference on Computer Graphics and interactive Techniques in Australasia and South East Asia (GRAPHITE 2005 - ACM-ACMSIGRAPH Sponsored). :143–146.
Férey N, Gros P.-E., Hérisson J., Gherbi R..  2005.  Visual data mining of genomic databases by immersive graph-based exploration. international Conference on Computer Graphics and interactive Techniques in Australasia and South East Asia (GRAPHITE 2005 - ACM-ACMSIGRAPH Sponsored). :143–146.

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