Hiroaki Takagi, Ph.D.

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(Aug. 29, 2024, updated)

Senior Assistant Professor
Department of Physics, School of Medicine, Nara Medical University
Visiting Scientist of BDR, RIKEN

E-mail : takagi at naramed-u.ac.jp
Phone : +81-744-22-3051-2270

Publications/ Links

Research Fields:
Biophysics, Non-linear science, Complex systems

Membership of Academic Societies:

The Biophysical Society of Japan

The Biophysical Society

The Physical Society of Japan

The Japanese Society for Mathematical Biology

Japanese Society for Quantitative Biology

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Publications

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Books

• "Theoretical Biology of the Cell" (in Japanese)
  K. Kaneko, S. Sawai, H. Takagi, and C. Furusawa (2020)
  


• "Quantitative Biology" (in Japanese)
  edited by T. Kobayashi (2018) (Chapter 3 H. Takagi and Y. Tsukada)
  


• eBook "Quantitative Biology: Dynamics of living systems"
  edited by N. Hiroi, V. M Draviam, T. J. Kobayashi, A. Funahashi, C.B. Li, D. B Murray, H. Takagi,
  Z. Kalay, R. S Kasai, J. E. Shoemaker, A. Kimura, N. A Irie (2017)
  Lausanne: Frontiers Media, doi: 10.3389/978-2-88945-213-2.

Spontaneous Movement, Fluctuation, Sensing Strategy of Cells & Organisms

• D.Y. Shin, H. Takagi, M. Hiroshima, S. Matsuoka, and M. Ueda (2023)
  "Sphingomyelin metabolism underlies Ras excitability for efficient cell migration and chemotaxis"
  Cell Structure and Function, 48:145-160. doi:10.1247/csf.23045.


• Y. Ikeda, P. Jurica, H. Kimura, H. Takagi, S. Zbigniew, K. Kiyono, Y. Arata, and Y. Sako (2020)
  "C. elegans episodic swimming is driven by multifractal kinetics"
  Scientific Reports, 10.1:14775. doi:10.1038/s41598-020-70319-0.


• Y. Arata, H. Takagi (2019)
  "Quantitative Studies for Cell-Division Cycle Control"
  Frontiers in Physiology, 10:1022. doi: 10.3389/fphys.2019.01022.


• T. Sakai, H. Takagi, Y. Muraki, and M. Saito (2018)
  "Unique directional motility of influenza C virus controlled by its filamentous morphology and short-range motions"
  Journal of Virology, 92(2), e01522-17.


• Y. Arata, H. Takagi, Y. Sako, and H. Sawa (2015)
  "Power Law Relationship between Cell Cycle Duration and Cell Volume in the Early Embryonic Development of Caenorhabditis elegans"
  Frontiers in Physiology, 5:529. doi: 10.3389/fphys.2014.00529.


• H. Takagi, M.J. Sato, and M. Ueda (2014)
  "Robust Cellular Information Processing Based on Fluctuation in Cell Motility" (in Japanese)
  Cell Technology, 33 (1), 48-53.


• M.J. Sato, H. Kuwayama, W.N. Egmond, A.L.K. Takayama, H. Takagi, P.J.M. van Haastert, T. Yanagida,
  and M. Ueda (2009)
  "Switching Direction in Electric Signal-induced Cell Migration by cGMP and Phosphatidylinositol Signaling"
  Proceedings of National Academy of Sciences of the United States of America, 106 (16), 6667-72.


• H. Takagi, M.J. Sato, T. Yanagida, and M. Ueda (2008)
  "Functional Analysis of Spontaneous Cell Movement under Different Physiological Conditions"
  PLoS ONE, 3 (7), e2648.


• M. Ueda, M. Ueda, H. Takagi, M.J. Sato, T. Yanagida, I. Yamashita, and K. Setsune (2008)
  "Biologically-inspired Stochastic Vector Matching for Noise-robust Information Processing"
  Physica A, 387, 4475-4481.


• K. Hayashi and H. Takagi (2007)
  "The Fluctuation Theorem Applied to Dictyostelium discoideum System"
  Journal of Physical Society of Japan, 76 (10), 105001.


• H. Takagi, M.J. Sato (2007)
  "Analysis of Dictyostelium Cell Movement -Towards the Extraction of Cellular State-" (in Japanese)
  Bussei Kenkyu (Kyoto), 87 (6), 907-913.


• M.J. Sato, M. Ueda, H. Takagi, T. M. Watanabe, T. Yanagida, and M. Ueda (2007)
  "Input-output Relationship in Galvanotactic Response of Dictyostelium Cells"
  BioSystems, 88, 261-272.

Polymorphism, Kinetics, Cooperative behaviors of Signaling Proteins

• H. Fukunaga, T. Washio, K. Fujita, M. Ohmachi, H. Takagi, K. Ikezaki, T. Yanagida, and M. Iwaki (2023)
  "Dynamic coordination of the lever-arm swing of human myosin II in thick filaments on actin"
  bioRxiv, 2023-08. doi: 10.1101/2023.08.30.554051


• T. Sultana, H. Takagi, M. Morimatsu, H. Teramoto, C.B. Li, Y. Sako, and T. Komatsuzaki (2013)
  "Non-Markovian Properties and Multiscale Hidden Markovian Network Buried in Single Molecule Time Series"
  Journal of Chemical Physics, 139 (24), 245101.


• H. Takagi, M. Morimatsu, and Y. Sako (2012)
  "Static and Dynamic Disorder in in vitro Reconstituted Receptor/adaptor Interaction"
  Advances in Chemical Physics, 146, 195-215.


• H. Takagi, M. Nishikawa (2012)
  "Mechanochemical Coupling Revealed by the Fluctuation Analysis of Different Bio-molecular Motors"
  Advances in Chemical Physics, 146, 419-435.


• M. Nishikawa, H. Takagi, T. Shibata, A.H. Iwane, and T. Yanagida (2008)
  "Fluctuation Analysis of Mechanochemical Coupling Depending on the Type of Biomolecular Motors"
  Physical Review Letters, 101 (12), 128103 (4).


• M. Morimatsu*, H. Takagi*, K. Ohta, R. Iwamoto, E. Mekada, T. Yanagida, and Y. Sako (2007)
  (* equal contribution)
  "Multiple-state Reactions between the Epidermal Growth Factor Receptor and Grb2 as observed by using Single-molecule Analysis"
  Proceedings of National Academy of Sciences of the United States of America, 104 (46), 18013-18018.


• Y. Teramura, J. Ichinose, H. Takagi, K. Nishida, T. Yanagida, and Y. Sako (2006)
  "Single-molecule Analysis of Epidermal Growth Factor Binding on the Surface of Living Cells"
  European Molecular Biology Organization Journal, 25, 4215-4222.


• T. Uyemura, H. Takagi, T. Yanagida, and Y. Sako (2005)
  "Single-molecule Analysis of Epidermal Growth Factor Signaling that Leads to Ultrasensitive Calcium Response"
  Biophysical Journal, 88 (5), 3720-3730.

Differentiation, Evolution, Symbolization : Construction by Multi-Component Reaction-Diffusion System

• H. Takagi and K. Kaneko (2010)
  "Topological, statistical, and dynamical Origins of Genetic Code"
  Physics of Life Reviews, 7 (3), 379-380.


• H. Takagi (2010)
  "Differentiation of Spots Constructed in a Multi-component Gray-Scott Reaction Diffusion System" (in Japanese)
  RIMS Kokyuroku (Kyoto), 1680, 68-79.


• H. Takagi and K. Kaneko (2005)
  "Dynamical Systems Basis of Metamorphosis: Diversity and Plasticity of Cellular States in Reaction Diffusion Network"
  Journal of Theoretical Biology, 234, 173-186.


• H. Takagi and K. Kaneko (2003)
  "Dynamic Relationship between Diversity and Plasticity of Cell types in Multi-cellular State"
  Proceedings of the Eighth International Conference of Artificial Life, 79-88.


• H. Takagi and K. Kaneko (2002)
  "Pattern Dynamics of a Multi-component Reaction Diffusion System: Differentiation of Replicating Spots"
  International Journal of Bifurcation and Chaos, 12(11), 2579-2598.


• H. Takagi, K. Kaneko (2001)
  "Differentiation of Spots Constructed in a Reaction Diffusion System" (in Japanese)
  Bussei Kenkyu (Kyoto), 77 (2), 322-323.


• H. Takagi and K. Kaneko (2001)
  "Differentiation and Replication of Spots in a Reaction Diffusion System with Many Chemicals"
  Europhysics Letters, 56 (1), 145-151.


• H. Takagi, K. Kaneko, and T. Yomo (2000)
  "Evolution of Genetic Codes through Isologous Diversification of Cellular States"
  Artificial Life, 6, 283-305.


• H. Takagi, K. Kaneko (2000)
  "Evolution of Genetic Codes through Isologous Diversification of Cellular States"
  Proceedings of 7th International Conference of Artificial Life, 122-131.

Conferences Organized by me & my Colleagues

• one of the Organizers (2022)
  "The 10th Annual Meeting of Japanese Society for Quantitative Biology" (in Japanese)


• one of the Organizers (2013)
  "The 6th Annual Meeting of Japanese Society for Quantitative Biology" (in Japanese)


• one of the Organizers (2012)
  "The 4th Annual Meeting of Japanese Society for Quantitative Biology"


• H. Takagi and R. Uno (2007)
  "Informatics of Dynamical Systems -7th-" (in Japanese)


• T. Yamamoto, Y. Sato, N. Kataoka, and H. Takagi (2006)
  "Conference on New Aspects of High-dimensional Nonlinear Dynamics" (in Japanese)

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Links

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• Physics Department, Nara Medical University
• Kaneko-Lab, University of Tokyo
• Yanagida-Lab, Osaka University
• Ueda-Lab, Osaka University


• RIKEN Center for Biosystems Dynamics Research (BDR)