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Workshop on Biopolymers: Thermodynamics, Kinetics and Mechanics of DNA, RNA and Proteins | (smr 1658)
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  • Monday, 30 May 2005
    • 08:30 - 11:00 Registration and administrative formalities
      Location: Main Building Main Lecture Hall
      • 08:30 Registration and administrative formalities 2h30'
    • 11:00 - 11:15 Opening remarks
      Location: Main Building Main Lecture Hall
      • 11:00 Opening remarks 15'
        Speaker: K.R. Sreenivasan, ICTP Director
    • 11:20 - 12:10 How small proteins fold
      Location: Main Building Main Lecture Hall
      • 11:20 How small proteins fold 50'
        Speaker: Fersht, A. (Cambridge University, UK)
    • 12:10 - 13:00 The two aspects of the protein folding problem
      Location: Main Building Main Lecture Hall
      • 12:10 The two aspects of the protein folding problem 50'
        Speaker: Scheraga, H.A. (Cornell University, Ithaca, USA)
    • 13:00 - 14:30 Break
      Location: Main Building Main Lecture Hall
      • 13:00 Break 1h30'
    • 14:30 - 15:20 Properties of the free energy barriers for protein folding
      Location: Main Building Main Lecture Hall
      • 14:30 Properties of the free energy barriers for protein folding 50'
        Speaker: Kiefhaber, T. (University Basel, Switzerland)
    • 15:20 - 16:10 A unified physics perspective on proteins
      Location: Main Building Main Lecture Hall
      • 15:20 A unified physics perspective on proteins 50'
        Speaker: Maritan, A. (Università degli Studi di Padova, Italy)
    • 16:10 - 16:30 Coffee break
      Location: Main Building Main Lecture Hall
      • 16:10 Coffee break 20'
    • 16:30 - 17:20 Cooperativity principles in protein folding: desolvation is a likely origin of robust enthalpic barriers
      Location: Main Building Main Lecture Hall
      • 16:30 Cooperativity principles in protein folding: desolvation is a likely origin of robust enthalpic barriers 50'
        Speaker: Chan, H.S. (University of Toronto, Canada)
    • 17:20 - 18:10 The cohesive fluctuation dynamics of proteins
      Location: Main Building Main Lecture Hall
      • 17:20 The cohesive fluctuation dynamics of proteins 50'
        Speaker: Jernigan, R. (Iowa State University, Ames, USA)
  • Tuesday, 31 May 2005
    • 09:00 - 09:50 The ISWI ATP-dependent chromatine remodelling factor is a DNA translocase
      Location: Main Building Main Lecture Hall
      • 09:00 The ISWI ATP-dependent chromatine remodelling factor is a DNA translocase 50'
        Speaker: Bensimon, D. (ENS, Paris, France)
    • 09:50 - 10:40 Molecular engineering of surfaces: from nanomechanics to proteomics
      Location: Main Building Main Lecture Hall
      • 09:50 Molecular engineering of surfaces: from nanomechanics to proteomics 50'
        Speaker: Zhu, X. (University of Minnesota, Minneapolis, USA)
    • 10:40 - 11:00 Coffee Break
      Location: Main Building Main Lecture Hall
      • 10:40 Coffee Break 20'
    • 11:00 - 11:50 Single-molecule visualization of protein-DNA interactions
      Location: Main Building Main Lecture Hall
      • 11:00 Single-molecule visualization of protein-DNA interactions 50'
        Speaker: Kowalczykowski, S. (University of California at Davis, USA)
    • 11:50 - 12:40 Pulling a nanostring with a nanomotor: the RuvAB-DNA interaction
      Location: Main Building Main Lecture Hall
      • 11:50 Pulling a nanostring with a nanomotor: the RuvAB-DNA interaction 50'
        Speaker: Stavans, J. (Weizmann Institute of Science, Rehovot, Israel)
    • 12:40 - 14:30 Break
      Location: Main Building Main Lecture Hall
      • 12:40 Break 1h50'
  • Wednesday, 1 June 2005
    • 09:00 - 09:50 The phage lambda switch: a case study (in biology and TPM methodology)
      Location: Main Building Main Lecture Hall
      • 09:00 The phage lambda switch: a case study (in biology and TPM methodology) 50'
        Speaker: Finzi, L. (Università degli Studi di Milano, Italy)
    • 09:50 - 10:40 DNA ejection from T5 bacteriophage under osmotic pressure
      Location: Main Building Main Lecture Hall
      • 09:50 DNA ejection from T5 bacteriophage under osmotic pressure 50'
        Speaker: Livolant, F. (Université Paris-Sud, Orsay, France)
    • 10:40 - 11:00 Coffee break
      Location: Main Building Main Lecture Hall
      • 10:40 Coffee break 20'
    • 11:00 - 11:50 Functional dynamics of PDZ binding domains: a normal mode analysis
      Location: Main Building Main Lecture Hall
      • 11:00 Functional dynamics of PDZ binding domains: a normal mode analysis 50'
        Speaker: De Los Rios, P. (EPFL, Lausanne, Switzerland)
    • 11:50 - 12:40 Solvation effects and the topology-depending folding rates of proteins
      Location: Main Building Main Lecture Hall
      • 11:50 Solvation effects and the topology-depending folding rates of proteins 50'
        Speaker: Hoang, T.X. (Vietnamese Academy of Science and Technology, Hanoi, Vietnam)
    • 12:40 - 14:30 Break
      Location: Main Building Main Lecture Hall
      • 12:40 Break 1h50'
    • 14:30 - 15:20 Multi-scale modeling of DNA
      Location: Main Building Main Lecture Hall
      • 14:30 Multi-scale modeling of DNA 50'
        Speaker: Olson, W. (Rutgers, the State University of New Jersey, Piscataway, USA)
    • 15:20 - 16:10 Parametrizations of coarse-grain sequence-dependent models of DNA mechanics
      Location: Main Building Main Lecture Hall
      • 15:20 Parametrizations of coarse-grain sequence-dependent models of DNA mechanics 50'
        Speaker: Maddocks, J.H. (EPFL, Lausanne, Switzerland)
    • 16:10 - 16:30 Coffee break
      Location: Main Building Main Lecture Hall
      • 16:10 Coffee break 20'
    • 16:30 - 17:20 Barrier crossing by a long chain molecule
      Location: Main Building Main Lecture Hall
      • 16:30 Barrier crossing by a long chain molecule 50'
        Speaker: Sebastian, K.L. (Indian Institute of Science, Bangalore, India)
    • 17:20 - 18:10 Modelling biopolymers in a cellular context: physical aspects of DNA replication, transcription and translation
      Location: Main Building Main Lecture Hall
      • 17:20 Modelling biopolymers in a cellular context: physical aspects of DNA replication, transcription and translation 50'
        Speaker: Marenduzzo, D. (University of Warwick, UK)
  • Thursday, 2 June 2005
    • 09:00 - 09:50 DNA disentangling by topoisomerases
      Location: Main Building Main Lecture Hall
      • 09:00 DNA disentangling by topoisomerases 50'
        Speaker: Zechiedrich, E.L. (Baylor College of Medicine, Houston, USA)
    • 09:50 - 10:40 Using supercoiling sensitive genes to study topological domains in Escherichia coli
      Location: Main Building Main Lecture Hall
      • 09:50 Using supercoiling sensitive genes to study topological domains in Escherichia coli 50'
        Speaker: Postow, L. (Rockefeller University, New York, USA)
    • 10:40 - 11:00 Coffee break
      Location: Main Building Main Lecture Hall
      • 10:40 Coffee break 20'
    • 11:00 - 11:50 Replication origin usage in the frog Xenopus: single-molecule studies on the DNA replication random completion problem
      Location: Main Building Main Lecture Hall
      • 11:00 Replication origin usage in the frog Xenopus: single-molecule studies on the DNA replication random completion problem 50'
        Speaker: Hyrien, O. (ENS, Paris, France)
    • 11:50 - 12:40 Long-range compaction and organization of interphase chromatin in budding yeast
      Location: Main Building Main Lecture Hall
      • 11:50 Long-range compaction and organization of interphase chromatin in budding yeast 50'
        Speaker: Bystricky, K. (Université Paul Sabatier, Toulouse, France)
    • 12:40 - 14:30 Break
      Location: Main Building Main Lecture Hall
      • 12:40 Break 1h50'
    • 14:30 - 15:20 Structure and assembly of viral capsids
      Location: Main Building Main Lecture Hall
      • 14:30 Structure and assembly of viral capsids 50'
        Speaker: Twarock, R. (University of York, UK)
    • 15:20 - 16:10 Poster highlights I
      Location: Main Building Main Lecture Hall
      • 15:20 Poster highlights I 50'
    • 16:10 - 16:30 Coffee break
      Location: Main Building Main Lecture Hall
      • 16:10 Coffee break 20'
    • 16:30 - 17:20 Phase transitions in DNA
      Location: Main Building Main Lecture Hall
      • 16:30 Phase transitions in DNA 50'
        Speaker: Prentiss, M. (Harvard University, Cambridge, USA)
    • 17:20 - 18:10 Poster highlights II
      Location: Main Building Main Lecture Hall
      • 17:20 Poster highlights II 50'
  • Friday, 3 June 2005
    • 09:00 - 09:50 Computer simulation of rare events in biological systems
      Location: Main Building Main Lecture Hall
      • 09:00 Computer simulation of rare events in biological systems 50'
        Speaker: Laio, A. (USI Campus ETH Zürich, Lugano, Switzerland)
    • 09:50 - 10:40 Ligand binding to biomolecules explored by molecular simulation
      Location: Main Building Main Lecture Hall
      • 09:50 Ligand binding to biomolecules explored by molecular simulation 50'
        Speaker: Carloni, P. (SISSA, Trieste, Italy)
    • 10:40 - 11:00 Coffee break
      Location: Main Building Main Lecture Hall
      • 10:40 Coffee break 20'
    • 11:00 - 11:50 Heterogenous biochemistry
      Location: Main Building Main Lecture Hall
      • 11:00 Heterogenous biochemistry 50'
        Speaker: Sikorav, J.-L. (CEA Saclay, France)
    • 11:50 - 12:10 Final remarks
      Location: Main Building Main Lecture Hall
      • 11:50 Final remarks 20'