guest researcher  

Email: Please rewrite (AT SIGN) and (DOT) as @ and .  
TEL: (011)7069458 

FAX: (011)7069437 

Office: Research Institute for Electronic Science, 5th floor, room 105 

Mailing address: Research Institute for Electronic Science, Hokkaido University, Kita 20 Nishi 10, Kitaku, Sapporo 0010020, Japan 
Research Interests
To illuminate physical phenomena considered as stochastic process from molecular dynamics
The equilibrium statistical mechanics is based on hypotheses —statistical property of observed physical phenomena has “uniform in space” and “uniform in time (stationary): mostly due to its observation time scale cannot capture dynamics behind” —. However nonuniform system such as biosystem both hypotheses are suspicious. In the case, bases of analysis should be based on dynamics of molecules but our knowledge has not reached there yet (even for some small molecules, we still cannot capture clear picture of chemical reactions from dynamical point of view). My focus of subjects is from reactivity of molecules to allosteric change in protein and diffusion in nonuniform space (for example in cell). And my aim is to bridge several time and spacescales. I want to explore these physical phenomena (that had considered as stochastic process) based on molecular dynamics and want to understand how (“looking like”) stochastic processes emerge from molecular dynamics with developing methods to analyze and with creating theory to construct those methods.
Awards
 2015.10.26 Best Poster Award at The 9th Annual Meeting of Japan Society for Molecular Science [URL]
 2015.06.04 Best Poster Prize at 31st Symposium on Chemical Kinetics and Dynamics.
 2014.12.17 Poster Award at The 15th RiesHokudai International Symposium 響[hibiki].
 2014.03.11 Presentation Award at the Meeting of Hokkaido Branch of the Biophysical Society of Japan.
 2012.8.31 Best Question award at Summer School for the Organization of Young Biophysicists.
 2010.3.10. An excellent award in a Sakigake mathematical workshop on “cooperation between applied mathematics and physics let’s make and move your mathematical model.
Published Papers
2021
 [5]Yuta Mizuno, Mikoto Takigawa, Saki Miyashita, Yutaka Nagahata, Hiroshi Teramoto, Tamiki Komatsuzaki
An algorithm for computing phase space structures in chemical reaction dynamics using Voronoi tessellation
Physica D: Nonlinear Phenomena 428, (2021)
DOI: 10.1016/j.physd.2021.133047
2015
 [4]Yutaka Nagahata, Satoshi Maeda, Hiroshi Teramoto, Takashi Horiyama, Tetsuya Taketsugu, Tamiki Komatsuzaki
Deciphering Time Scale Hierarchy in Reaction Networks
The Journal of Physical Chemistry B 120(8), pp.19611971 (2015)
DOI: 10.1021/acs.jpcb.5b09941
 [3]Yosuke Sumiya, Yutaka Nagahata, Tamiki Komatsuzaki, Tetsuya Taketsugu, Satoshi Maeda
Kinetic Analysis for the Multistep Profiles of Organic Reactions: Significance of the Conformational Entropy on the Rate Constants of the Claisen Rearrangement
The Journal of Physical Chemistry A 119(48), pp.1164111649 (2015)
DOI: 10.1021/acs.jpca.5b09447
2013
 [2]Yutaka Nagahata, Hiroshi Teramoto, ChunBiu Li, Shinnosuke Kawai, Tamiki Komatsuzaki
Reactivity boundaries for chemical reactions associated with higher index and multiple saddles
Physical Review E 88(4), pp.429234292311 (2013)
DOI: 10.1103/PhysRevE.88.042923  (Figure 6d from this paper was selected to be displayed on PRE journal web site as part of "Kaleidoscope")
 [1]Yutaka Nagahata, Hiroshi Teramoto, ChunBiu Li, Shinnosuke Kawai, Tamiki Komatsuzaki
Reactivity Boundaries to Separate the Fate of a Chemical Reaction Associated with an Indextwo saddle
Physical Review E 87(6), pp.62817 , (2013)
DOI: 10.1103/PhysRevE.87.062817
Presentations
2022
 [9]Yuta Mizuno, Mikoto Takigawa, Saki Miyashita, Yutaka Nagahata, Hiroshi Teramoto, Tamiki Komatsuzaki
An algorithm for computing phase space structures in chemical reaction dynamics using Voronoi tessellation  37th Symposium on Chemical Kinetics and Dynamics(6.16.3 ,2022), Online, Sendai, Japan
6, 3 (Oral)
2015
 [8]Yutaka Nagahata, Satoshi Maeda, Hiroshi Teramoto, ChunBiu Li, Tetsuya Taketsugu, Tamiki Komatsuzaki
Developing high precision algorithm to predict observation timescale hierarchy of an isomerization reaction network  The 16th RIESHokudai International Symposium(11.1011.11 ,2015), Chateraise Gateaux Kingdom Sapporo, Sapporo, Japan
11, 10 (Poster)
 [7]Yutaka Nagahata, Satoshi Maeda, Hiroshi Teramoto, ChunBiu Li, Takashi Horiyama, Tetsuya Taketsugu, Tamiki Komatsuzaki
Deciphering timescale hierarchy encoded in complex reaction networks  31st Symposium on Chemical Kinetics and Dynamics(6.36.5 ,2015), Frontier Research in Applied Sciences Bldg., Faculty of Engineering, Hokkaido University, Sapporo, Hokkaido
6, 3 (poster)
 [6]Yutaka Nagahata, Hiroshi Teramoto, Takashi Horiyama, ChunBiu Li, Tamiki Komatsuzaki
Timescale hierarchies of complex reaction network  Workshop on dynamical systems and computation 2015(3.33.6 ,2015), Hokkaido University, Sapporo, Hokkaido
3, 4 (oral)
2014
 [5]Yutaka Nagahata, Satoshi Maeda, Hiroshi Teramoto, ChunBiu Li, Takashi Horiyama, Tetsuya Taketsugu, Tamiki Komatsuzaki
An extraction of embedded timescale hierarchies buried in complex reaction network  The 15th RiesHokudai International Symposium 響[hibiki](12.1612.17 ,2014), CHÂTERAISÉ Gateaux Kingdom SAPPORO, Sapporo, Hokkaido
12, 16 (poster)
2013
 [4]Yutaka Nagahata, Hiroshi Teramoto, Takashi Horiyama, Chun Biu Li, Tamiki Komatsuzaki
Toward understanding hierarchical structure of complex reaction networks extracted from single molecule time series  The 14th RIESHOKUDAI International Symposium 網[mou](12. 1112. 12 ,2013), CHÂTERAISÉ Gateaux Kingdom SAPPORO, Sapporo, Japan
12, 11 (poster)
 [3]Yutaka Nagahata, Hiroshi Teramoto, ChunBiu Li, Tamiki Komatsuzaki
Identifying states in Markov chain steady state network extracted from time series by finding minimum transition probability  The Complexity of Dynamics and Kinetics in Many Dimensions(6.18 ,2013), Telluride Intermediate School, Telluride, CO., US (Oral)
 [2]Yutaka Nagahata, Hiroshi Teramoto, ChunBiu Li, Shinnosuke Kawai, Tamiki Komatsuzaki
Reactivity Boundaries to Separate the Fate of a Chemical Reaction Associated with Multiple Saddles  Geometry of Chemical Reaction Dynamics in Gas and Condensed Phases ,Telluride Intermediate School(6.13 ,2013), Telluride, CO., US (Oral)
2011
 [1]Yutaka Nagahata, Shinnosuke Kawai, Hiroshi Teramoto, ChunBiu Li, Tamiki Komatsuzaki
Deterministic properties of a saddle with two reactive degreesoffreedoms  12th RIESHokudai International Symposium (11.2111.22 ,2011), Chateraise Gateaux Kingdom Sapporo (poster)
所属学会
 日本物理学会
 分子科学会
 日本化学会