Coarse-Graining Biological Systems: Towards Large-Scale Interactions and Assembly

September 7, 2009 to September 10, 2009

Location : CECAM-HQ-EPFL, Lausanne, Switzerland

Details	Participants	Program	Posters	Abstracts	Report
One-Bead Models for Biopolymers: State of the art, open problems, perspectives Valentina Tozzini Modeling the activity of bacterial ribosome Joanna Trylska DNA on different time and length scales: From DNA nanomechanics to chromosome dynamics Ralf Everaers Towards simulation of protein interactions in the presence of macromolecular crowding Rebecca Wade Self-assembly of membrane proteins in model raft lipid membranes Lars Schäfer Simulation of Protein Diffusion and Folding in a Protocell Jeffery Skolnick Coarse-grained Modeling to characterize structure of biological molecules Florence Tama Membrane Voltage Sensors and their Toxins: Coarse-Grained Simulation Studies Mark Sansom, Chze Ling Wee, Younes Mokrab Insights on complex macromolecular assemblies using reduced protein and DNA models and systematic docking methods Chantal Prevost, Adrien Saladin, Christopher Amourda, Marc Guérout Coarse grained modeling of IgG antibodies: from internal dynamical effects to ensemble simulations Paolo De Los Rios Flexible protein-protein docking with a coarse-grained protein model Martin Zacharias Insight into viral entry using coarse-grained and atomistic membrane simulations Peter Kasson Development of hierarchical simulation models to study structure formation in synthetic and biological materials Christine Peter Enhanced sampling in generalized ensemble with large gap of sampling parameter: case study in temperature space random walk Jianpeng Ma Mechanics-based coarse-grained modeling of protein structures Sean Sun Allostery and conformational selection in signaling: the ubiquitin E3 ligases Ruth Nussinov, Jin Liu Mesoscale Modeling of the Chromatin Fiber Tamar Schlick Coarse-Grained modeling of Biomolecular Communications Jhih-Wei Chu Integrative Structure Determination of Protein-Protein Complexes Using Small Angle X-ray Scattering, Electron Microscopy, and Fast Mapping by Nuclear Magnetic Resonance Spectroscopy Dina Schneidman, A. Rossi, A. Avila-Sakar, K. Lasker, J. Velázquez-Muriel, P. Strop, A. Rajpal, K.A. Krükenberg, M. Liao, H. Kim, S. Sobhanifar, V. Dötsch, D.A. Agard, Y. Cheng, A. Sali Coarse grained modeling of IgG antibodies: from internal dynamical effects to ensemble simulations Paolo De Los Rios Coarse graining DNA John H. Maddocks Simulation Reveals Fundamental Behavior of the Actin Filament and Arp2/3 Branch Junction Jim Pfaendtner Multiscale Simulation of Biomolecular Assemblies Gregory Voth Coarse-grained electrostatics in multiscale simulations of proteins Matteo Dal Peraro To be announced Bernard Brooks Network Models for Protein Dynamics and Allostery: Application to GroEL-GroES Ivet Bahar Protein mechanics: elastic networks and beyond Richard Lavery, Nicoletta Ceres, Elena Papaleo, Marco Pasi Stability of Eye-lens Protein Mixtures: a colloidal physicist approach Giuseppe Foffi