Academic Assembly School of Science and Technology Institute of Agriculture

Interdisciplinary Cluster for Cutting Edge Research Institute for Biomedical Sciences 

Assistant Professor 

Researcher Information

Research Keyword

    Theoretical biology, Bioinformatics

Field Of Study

  • Biophysics, Biophysics
Research activity information


  • Development of the 12-base short dimeric myogenetic oligodeoxynucleotide that induces myogenic differentiation.
    Umezawa K, Ikeda R, Sakamoto T, Enomoto Y, Nihashi Y, Shinji S, Shimosato T, Kagami H, Takaya T.
    BioTech, 13(2), 11, 2024, Refereedリポジトリ電子ジャーナル
  • Myogenetic oligodeoxynucleotide induces myocardial differentiation of murine pluripotent stem cells.
    Ishioka M, Nihashi Y, Sunagawa Y, Umezawa K, Shimosato T, Kagami H, Morimoto T, Takaya T.
    Int J Mol Sci, 24(18), 14380, 2023, Refereedリポジトリ電子ジャーナル
  • Identification of a novel osteogenetic oligodeoxynucleotide (osteoDN) that promotes osteoblast differentiation in a TLR9-independent manner.
    Nihashi Y, Miyoshi M, Umezawa K, Shimosato T, Takaya T.
    Nanomaterials, 12(10), 1680, 14 May 2022, Refereedリポジトリ電子ジャーナル
  • Myogenetic oligodeoxynucleotide complexed with berberine promotes differentiation of chicken myoblasts.
    Nihashi Y, Shinji S, Umezawa K, Shimosato T, Ono T, Kagami H, Takaya T
    ANIMAL SCIENCE JOURNAL, 92(1), e13597, 25 Jul. 2021, Refereedリポジトリ電子ジャーナル
  • Identification of the myogenetic oligodeoxynucleotides (myoDNs) that promote differentiation of skeletal muscle myoblasts by targeting nucleolin
    Shinji S, Umezawa K, Nihashi Y, Nakamura S, Shimosato T, Takaya T.
    Frontiers in Cell and Developmental Biology, 8, 616706, Jan. 2021, Refereedリポジトリ電子ジャーナル
  • Hyperstable De Novo Protein with a Dimeric Bisecting Topology
    Kimura N., Mochizuki K., Umezawa K., Hecht MH., Arai R.
    ACS Synthetic Biology, 9(2), 254-259, 17 Jan. 2020電子ジャーナル
  • Berberine and palmatine inhibit the growth of human rhabdomyosarcoma cells.
    Shinji, S; Nakamura, S; Nihashi, Y; Umezawa, K; Takaya, T
    Biosci Biotechnol Biochem, 84(1), 63-75, 2020, RefereedWebofScienceリポジトリ電子ジャーナル
  • Distinct cell proliferation, myogenic differentiation, and gene expression in skeletal muscle myoblasts of layer and broiler chickens
    Nihashi Y, Umezawa K, Shinji S, Hamaguchi Y, Kobayashi H, Kono T, Ono T, Kagami H, Takaya T
    SCIENTIFIC REPORTS, 9, 16527, 11 Nov. 2019, RefereedWebofScienceリポジトリ電子ジャーナル
  • Synthesis of epigallocatechin trimer, (epigallocatechin)2-epicatechin, and (epigallocatechin)2-catechin via a Lewis acid mediated one-pot condensation and their antitumor activities in prostate cancer cells.
    Ichikawa M, Yamamoto S, Ishihara C, Nonobe S, Hattori Y, Umezawa K, Fujii H, Makabe H
    Tetrahedron, 74(27), 3534-3542, 05 Jul. 2018, Refereed
  • Structural and dynamical characteristics of tropomyosin epitopes as the major allergens in shrimp.
    Ozawa H, Umezawa K, Takano M, Ishizaki S, Watabe S, Ochiai Y
    Biochemical and biophysical research communications, 498(1), 25 Mar. 2018, Refereed
  • Epicatechin oligomers longer than trimers have anti-cancer activities, but not the catechin counterparts
    Takanashi K, Suda M, Matsumoto K, Ishihara C, Toda K, Kawaguchi K, Senga S, Kobayashi N, Ichikawa M, Katoh M, Hattori Y, Kawahara S, Umezawa K, Fujii H, and Makabe H
    SCIENTIFIC REPORTS, 7(1), 7791, 10 Aug. 2017, Refereed
  • Over-Destabilization of Protein-Protein Interaction in Generalized Born Model and Utility of Energy Density Integration Cutoff
    Mizuhara Y, Parkin D, Umezawa K, Ohnuki J, Takano M
    JOURNAL OF PHYSICAL CHEMISTRY B, 121, 4669-4677, 20 Apr. 2017, Refereed
  • 分子動力学シミュレーションで探る天然変性タンパク質の準安定複合体構造と結合解離調節機構
    信州大学農学部紀要, 53, 34-43, 21 Mar. 2017リポジトリ
  • Intrinsic disorder accelerates dissociation rather than association
    Koji Umezawa, Jun Ohnuki, Junichi Higo, Mitsunori Takano
    Proteins: Structure, Function, and Bioinformatics, -(-), 18 May 2016, Refereed電子ジャーナル
  • Enhanced sampling simulations to construct free-energy landscape of protein–partner substrate interaction
    Jinzen Ikebe, Koji Umezawa, Junichi Higo
    Biophysical Reviews, 8(1), 45-62, 11 Jan. 2016, Refereed電子ジャーナル
  • virtual-system coupled multicanonical molecular dynamics simulation: Principles and applications to free-energy landscape of protein–protein interaction with an all-atom model in explicit solvent
    Junichi Higo, Koji Umezawa, Haruki Nakamura
    The Journal of Chemical Physics, 138, 184106, 10 May 2013, Refereed電子ジャーナル
  • Conformational ensembles of an intrinsically disordered protein pKID with and without a KIX domain in explicit solvent investigated by all-atom multicanonical molecular dynamics
    Koji Umezawa, Jinzen Ikebe, Mitsunori Takano, Haruki Nakamura, Junichi Higo
    BIOMOLECULES, 2(1), 104-121, 22 Feb. 2012, Refereed電子ジャーナル
  • Theory for trivial trajectory parallelization of multicanonical molecular dynamics and application to a polypeptide in water
    Jinzen Ikebe, Koji Umezawa, Narutoshi Kamiya, Takanori Sugihara, Yasushige Yonezawa, Yu Takano, Haruki Nakamura, Junichi Higo
    JOURNAL OF COMPUTATIONAL CHEMISTRY, 32(7), 1286-1297, 15 Dec. 2010, Refereed電子ジャーナル
  • Solvent flow patterns fluctuating largely around a protein and correlation with solvent density fluctuations: A molecular dynamics study
    Koji Umezawa, Ryota Morikawa, Haruki Nakamura, Junichi Higo
    The Journal of Chemical Physics, 132, 155103, 16 Apr. 2010, Refereed電子ジャーナル
  • Conformational requirement on peptides to exert laminin's activities and search for protein segments with laminin's activities
    Koji Umezawa, Jinzen Ikebe, Motoyoshi Nomizu, Haruki Nakamura, Junichi Higo
    Biopolymers, 92(2), 124-131, 29 Jan. 2009, Refereed電子ジャーナル
  • Solvent Site-Dipole Field Accompanying Protein-Ligand Approach Process
    Norikazu Takano, Koji Umezawa, et al.
    Chem-Bio Informatics Journal, 8(1), 14-24, 29 Apr. 2008, Refereed電子ジャーナル
  • Structure dependency of a 24-residue peptide humanin on solvent and preferential solvation by trifluoroethanol studied by multicanonical sampling
    Ryosuke Yagisawa, Narutoshi Kamiya, Jinzen Ikebe, Koji Umezawa, Junichi Higo
    Chemical Physics Letters, 455(4-6), 293-296, 10 Apr. 2008, Refereed電子ジャーナル
  • Collective solvent flows around a protein investigated by molecular dynamics simulation
    Koji Umezawa, Junichi Higo, Sakurako Shimotakahara, Heisaburo Shindo
    The Journal of Chemical Physics, 127(4), 045101, 26 Jul. 2007, Refereed電子ジャーナル
  • Cyclic Peptide Analysis of the Biologically Active Loop Region in the Laminin α3 Chain LG4 Module Demonstrates the Importance of Peptide Conformation on Biological Activity
    Kozue Kato-Takagaki, Nobuharu Suzuki, Fumiharu Yokoyama, Shu Takaki, Koji Umezawa, Junichi Higo, Marumi Mochizuki, Yamato Kikkawa, Shinya Oishi, Atsushi Utani, Motoyoshi Nomizu
    Biochemistry, 46(7), 1952-1960, 30 Jan. 2007, Refereed電子ジャーナル

Books and other publications

  • Protein Conformational Dynamics: Advances in Experimental Medicine and Biology 805
    Junichi Higo, Koji Umezawa, Joint work, Free-Energy Landscape of Intrinsically Disordered Proteins Investigated by All-Atom Multicanonical Molecular Dynamics
    Springer, 331-351 16 Dec. 2013


  • 化学系基礎実験
    Shinshu University
  • 生物物理化学
    Shinshu University
  • 生化学
    Shinshu University

Research Themes

  • Molecular simulation
  • Computational structural biology
  • Intrinsically disordered protein