Komatsuzaki Group

Lectures

Tamiki Komatsuzaki

Chun Biu Li

Bachelor Course(Hokkaido Univ. 2008-)

  • Environment and Human: Nanotechnology based on Light, Biology and Molecule
    “Single Molecule Biology: Complexity of Biological Functions Resolved from Time Series Information of Single Molecules”(Prof.Komatsuzaki)
  • “Introduction to Time Series Analysis with Applications to Real Complex System”(Prof.Li)
  • Freshman Seminar(Prof.Teramoto)
  • Basic Chemistry I (Prof.Komatsuzaki and Prof.Teramoto)

Master and Doctor Course (Hokkaido Univ. Grad. School of Life Science 2008-)

  • Life Molecular Science(Prof.Komatsuzaki)
  • Molecular Informatics(Prof.Komatsuzaki)
  • Information of Nanoscience and NanotechnologyⅠ(Prof.Komatsuzaki,Prof.Li)
  • Special Lecture on Biochemistry Ⅰ(Prof.Komatsuzaki)

Bachelor Course (Kobe Univ. Faculty of Science, 1999-2007)

  • Earth and Planetary Sciences II
  • Origin, Evolution and Diversity of Planetary Systems
  • Computer Science
  • Computer Science Exercise
  • Nonlinear Science

Master and Doctor Course (Kobe Univ. Grad. School of Science 1999-2007)

  • Principles of Biological Computation
  • Emergence Computation
  • Nonlinear Science II

Adjunctive Lectures at another Universities

  • A lecture “Selectivity and Stochasticity in Chemical Reactions” at Faculty of Science, Hiroshima University (2006)
  • A lecture “State Space Structure of Biomolecules interpreted from Single Molecule Time Series” at 46th Summer School of Biological Physics for Young Researchers (2006)
  • Theoretical Division, Institute for Molecular Science (April 2005-March 2006)
  • A Lecture “Origin of Selectivity and Stochasticity in Chemical Reactions-Why and How do Reactions Occur? ” at Nano-Bio-IT Education Program, Hiroshima University (2005)
  • A lecture “Origin of Selectivity and Stochasticity in Chemical Reactions” at Faculty of Science, Ibaraki University (2004)
  • A lecture “Chemical Reaction Dynamics and Chaos-Revisit of Transition State Concept” at 43th Summer School of Molecular Science for Young Researchers (2003)
  • A lecture “Dynamics of Chemical Reactions and Chaos-Why do Reactions Occur? ” at College of Arts and Sciences, University of Tokyo (2003)
  • A lecture at Faculty of Education, Shiga University (2001)

High school Lectures/City Lectures

  • A City College for Genome Science in Kyoto, “Let’s Think The Reduction in Capturing the Energy Landscapes of Proteins” (2003)
  • An Introductory Lecture at a high school in Kobe “Chaos is Disorder !?” (2002)
  • A City College for Genome Science in Kyoto, “Let’s Think The Motions of Folding of Proteins” (2002)

Seminars at the other institutes/Universities (2000-), Komatsuzaki

  • The 2st Training Course of Minority Biology, Institute of Scientific and Industrial Research, Osaka University, “Time series data analysis of single molecule”, Aug 7(2013)
  • ETH Zurich(Switzerland), Department of Mechanical and Process Engineering, “Chance and necessity in reactions under thermal fluctuation”, July 14 (2014)
  • The 1st Training Course of Minority Biology, Institute of Scientific and Industrial Research, Osaka University, “Time series data analysis of single molecule”, July 29(2014)
  • Kyoto University(Japan), Graduate course of Medicine and Medical Science, “Toward deciphering molecular individuality in systems biology”, May 24 (2013)
  • National Chiao Tung University(Taiwan), Department of Chemistry, “Phase space geometry in chemical reaction dynamics: revisiting the concept of reaction coordinate”, Oct 19 (2012)
  • Muenster University (Germany), Department of Biology, “Mining the underlying free energy landscapes of biomolecules from single molecule time series”, Sep 16 (2011)
  • The University of Maryland(USA), Institute for Physical Science and Technology, “A Construction of an Effective Free Energy Landscape from Single-Molecule Time Series”, June 9 (2011)
  • A seminar at Faculty of Medicine,Fukui Unibersity(Dec.2009)”What can a singlle molecule time series date tell us?”
  • Max Planck Institute fur Mol. Physiologie”Extracting Multiscape Complex Network of Protein Fluctuation from Single-Molecule Time Series” Sep 8(2009)
  • Department of Chemistry, Univ. Zurich”Multiscale Complex Network extracted from Single Molecule Time Series”, Sep 11 (2009)
  • Department of Physics seminar, “Chance and Necessity in Changes of States,” ENS de Lyon, Lyon, France, Feb 23 (2009)
  • Lab. of Chem. Phys., NIDDK,NIH”Construction of an Effective Free Energy Landscape from Single-Molecule Time Series” July 2(2008)
  • Department of Chemistry, Boston University”Construction of an Effective Free Energy Landscape from Single-Molecule”,June 30(2008)
  • Institute for Molecular Science Symposium, Resolving the Complexity of Biomolecular Functions in terms of Single Molecule Time Series, June 13-14 (2008)
  • Graduate School of Life Science Seminar May 15 (2008)
  • A 102nd Complex System Seminar, Research Institute for Electronic Science, Hokkaido University, Normally Hyperbolic Invariant Manifold and Chemical Reaction Dynamics(2007)
  • A 7th Theoretical Chemistry Seminar, Department of Chemistry, Hokkaido Univ.,Chance and Necessity in Chemical Reactions: Rigorous Solution of Transition States to Satisfy the No-return Ansatz and its Existence Condition (2007)
  • Dynamic Structure of Biomolecular Systems solved from Single Molecule Time Series, Prof. Toshio Yanagida Laboratory, Osaka University (2006)
  • Water Field Dynamics in the Vicinity of Proteins, Center for Integrative Multiscale Modeling and Simulation Seminar, California Institute of Technology, Pasadena, California USA (2006)
  • A 69th Complex System Seminar, Department of Mathematics, Hokkaido University
    “Chemical Reaction Network composed by Stable and Unstable Invariant Manifolds of Normally Hyperbolic Invariant Manifold in High-dimensional Phase Space: Dynamical Principle of Directionality of Protein Folding”(2005)
  • A 128th Natural Environmental Theory Seminar, Faculty of Human Development, Kobe University ” How do chemical reaction occur?: Revisit of Transition State Concept” (2005)
  • A Seminar at Prof. Nobusada Group, Theoretical Division, Institute for Molecular Science “How and Why do chemical reaction occur?: Selectivity and Stochasticity in Chemical Reactions(2005)
  • Center for Integrative Multiscale Modeling and Simulation Seminar, California Institute of Technology,
    Dynamical Hierarchy of Transitions in Chemical Reactions and Protein Dynamics
    Pasadena, California USA, July 21, 2005
  • A seminar at Prof. Hiroki Nakamura group, Theoretical Division in Institute for Molecular Science, Okazaki (2004)
    Why and How does a Reacting System Climb Through the Saddles? -Geometrical Structure of Phase Space in Chemical Reactions-
    Reduced Dimensionality of the State Space at Transition Temperature on a Rugged, Multi-Basin Protein Landscape ?
  • Alan Turing Institute Meeting, 2004 Manchester UK
    Why and How does a System Climb over the Saddles on the multidimensional Energy Landscapes?
  • A seminar at Department of Chemsitry, Univ. of Birmingham, UK (2004)
    What can a single molecule time series data tell us? -Regularity in structural transitions on multi basin energy landscapes of proteins-
  • A seminar on dynamical system theory, Department of Applied Mathematics and Physics, Kyoto University “Dynamical determinicity of Chemical Reaction in a Fluctuating World-Why does the system climb over the saddle?” (2001)
  • A seminar at R-lab., Department of Physics, Nagoya University (2001) “Dynamical determinicity of Chemical Reaction in a Fluctuating World”
  • An Open Seminar at Faculty of Integrated Human Studies, Kyoto University (2001) ” Dynamical determinicity of Multibody Chemical Dynamics in a Fluctuating World”

Seminars at the other institutes/Universities (2000-), Li

  • Rice University(USA), Department of Chemistry, “Does Dynamic Disorder Exist in the Enzymatic Reactions on the Single Molecule Level?”, Mar. 21 (2013)
  • Rice University(USA), Department of Chemistry, “Data-Driven Modeling of Single Molecule Expriments from Time Series Analysis”, June 17 (2011)
  • “Single Molecule Time Series Analysis of Supermolecular Motor Proteins”, Seminar at Instutite for Molecules and Materials, Radboud University, Netherland (Aug 2010)
  • “Handy Guide to Analyze Time Series from Biological Systems: Some Simple but Powerful Tools”A seminar at Faculty of Medicine,Fukui Unibersity,Dec16,(2009)
  • “Data-driven Modeling of Single Molecule Experiments from Time Series Analysis”,A seminar at Laboratory for Photochemistry & Spectroscopy, Department of Chemistry, Katholieke Universiteit Leuven, Belgium,Feb 19(2009)
  • “Mining dynamical information for large-scale protein MD simulation: A geometrical perspective”, High-performance Molecular Simulation Team, RIKEN, Yokohama, Japan (2007).
  • “Uncovering the phase space geometry of reaction dynamics: Theory and Practice”, Nonlinear Dynamics Group, Tokyo Metropolitan University, Japan (2007).
  • “Extracting conformation dynamics on a photon-by-photon basis in single-molecule electron transfer experiment”, in the symposium of “Dynamics of protein folding and function”, Osaka University Protein Research Center, Japan (2006).
  • “How can we extract the underlying dynamics from the time series of Single Molecular experiments”, Kidera’s group, Yokohama City University, Japan (2006).
  • “Nonequilibrium statistical mechanics of small Hamiltonian systems”, Ohmine’s group, Nagoya University, Japan (2005).