Rchr
J-GLOBAL ID：201501001203733669   Update date: Nov. 16, 2024

Kuroda Daisuke

クロダ ダイスケ | Kuroda Daisuke
Affiliation and department：
National Institute of Infectious Diseases Laboratory of Vaccine Design, Research Center for Drug and Vaccine Development

About National Institute of Infectious Diseases Laboratory of Vaccine Design, Research Center for Drug and Vaccine Development


Job title： Senior Scientist
Homepage URL  (2)： https://scholar.google.com/citations?hl=jp&user=3nTWsxcAAAAJ ,  https://scholar.google.com/citations?hl=en&user=3nTWsxcAAAAJ
Research field  (7)： Immunology ,  Biological, health, and medical informatics ,  Systems genomics ,  Structural biochemistry ,  Intelligent informatics ,  Soft computing ,  Chemical biology
Research keywords  (14)： Structural Biology ,  Computational science ,  Antibody ,  Vaccine ,  Bioinformatics ,  Computational Design ,  Infectious disease ,  Biophysical chemistry ,  Informatics ,  Quantum Chemistry ,  Genome Science ,  Synthetic Biology ,  Systems Biology ,  Infectious immunology
Research theme for competitive and other funds  (20)：
  • 2022 - 2028 Evolution of humoral immune memory for resisting viral escape
  • 2024 - 2027 Advancement of Structure-Based B-cell Repertoire Mining Technology and Its Application to Antibody Miniaturization
  • 2023 - 2026 Study of brain organoids and mouse models for the therapeutic application of paramyxovirus central nervous system infection
  • 2021 - 2025 Transporting drugs across the blood-brain barrier through information technology
  • 2023 - 2024 Development of molecular design and screening method of broadly neutralizing antibodies using structural information
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Papers (63)：
  • Keisuke Kasahara, Raiji Kawade, Makoto Nakakido, Ryo Matsunaga, Hiroki Akiba, Kevin C. Entzminger, Toshiaki Maruyama, Shigeru C.J. Okumura, Jose M.M. Caaveiro, Daisuke Kuroda, et al. Unveiling the structural mechanisms behind high affinity and selectivity in phosphorylated epitope-specific rabbit antibodies. Journal of Biological Chemistry. 2024. 107989-107989
  • Hisano Yajima, Yuki Anraku, Yu Kaku, Kanako Terakado Kimura, Arnon Plianchaisuk, Kaho Okumura, Yoshiko Nakada-Nakura, Yusuke Atarashi, Takuya Hemmi, Daisuke Kuroda, et al. Structural basis for receptor-binding domain mobility of the spike in SARS-CoV-2 BA.2.86 and JN.1. Nature Communications. 2024. 15. 1
  • Jumpei Norimatsu, Hayato L. Mizuno, Takayoshi Watanabe, Takumi Obara, Makoto Nakakido, Kouhei Tsumoto, Horacio Cabral, Daisuke Kuroda, Yasutaka Anraku. Triphenylphosphonium-modified catiomers enhance in vivo mRNA delivery through stabilized polyion complexation. Materials Horizons. 2024. 11. 19. 4711-4721
  • Megumi Hoya, Ryo Matsunaga, Satoru Nagatoishi, Teruhiko Ide, Daisuke Kuroda, Kouhei Tsumoto. Impact of single-residue mutations on protein thermal stability: The case of threonine 83 of BC2L-CN lectin. International Journal of Biological Macromolecules. 2024. 272. 132682-132682
  • Koichi Yamamoto, Satoru Nagatoishi, Makoto Nakakido, Daisuke Kuroda, Kouhei Tsumoto. Functional insights of Tyr37 in framework region 2 directly contributing to the binding affinities and dissociation kinetics in single-domain VHH antibodies. Biochemical and Biophysical Research Communications. 2024. 709. 149839-149839
ｍore...
MISC (8)：
  • Daisuke Kuroda, Yoshimasa Takahashi. Current status of computer-aided immunogen design. BIO Clinica. 2024
  • Daisuke Kuroda. Computer-aided design of antibodies and vaccine immunogens. Frontier. 2023. 5. 1. 2-12
  • Daisuke Kuroda. Computer-aided antibody design. Experimental Medichine. 2022. 40. 20. 122-129
  • Daisuke Kuroda. Modeling antibody structure through computational chemistry. SAR News. 2022. 43. 9-23
  • 黒田 大祐, 津本 浩平. 【構造生命科学による創薬への挑戦】タンパク質工学から創薬へ 立体構造から眺めるSARS-CoV-2中和抗体. 医学のあゆみ. 2021. 278. 6. 609-615
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Books (5)：
  • Biopharmaceutical Informatics: Learning to Discover Developable Biotherapeutics
    CRC Press 2025 ISBN:9781032291673
  • Computer-Aided Antibody Design (Methods in Molecular Biology, 2552)
    2022 ISBN:1071626086
  • The Perfect Manual Interaction Analysis for Drug Discovery
    Yodosha 2021 ISBN:4758122563
  • Frontier of Antibody Engineering for Next-generation Therapeutics
    CMC Publishing CO.,LTD. 2012 ISBN:9784781306735
  • Computational Biology: New Research
    Nova Science Publishers, Inc. 2009 ISBN:9781606920404
Lectures and oral presentations  (32)：
  • Pursuing Broadly Neutralizing Antibodies for Rational Vaccine Design
    (Computational Vaccinology Symposium 2024)
  • Exploring antibody evolution through computational and physicochemical approaches
    (The 16th Annual Westin Immunogenicity Seminar 2024)
  • Computational Approaches for the Design and Discovery of Broad Neutralizing Antibodies Against SARS-CoV-2
    (第2回新型コロナウイルス研究集会 2024)
  • In silico evolution of SARS-CoV-2 antibodies in humans increases the resilience against emerging Omicron subvariants
    (The 52nd Annual Meeting of the Japanese Society for Immunology 2024)
  • Computer-aided antibody design in the era of AlphaFold
    (the 103rd CSJ Annual Meeting (2023) 2023)
ｍore...
Education (2)：
  • 2006 - 2011 Osaka University Institute for Protein Research
  • 2002 - 2006 Kitasato University School of Pharmacy
Professional career (1)：
  • Ph.D. (Osaka University)
Work history (13)：
  • 2022/04 - 現在 National Institute of Infectious Diseases Laboratory of Vaccine Design, Research Center for Drug and Vaccine Development Senior Scientist
  • 2022/04 - 2023/03 The University of Tokyo College of Arts and Sciences Part-time lecturer
  • 2019/04 - 2022/03 The University of Tokyo Medical Device Development and Regulation Research Center, School of Engineering Lecturer
  • 2018/04 - 2022/03 Chuo University Graduate School of Science and Engineering Part-time lecturer
  • 2018/02 - 2019/03 The University of Tokyo Medical Device Development and Regulation Research Center, School of Engineering Assistant Professor
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Committee career (3)：
  • 2019 - 現在 Rosetta Consortium Rosetta affiliate
  • 2017/01 - 2019/12 The Biophysical Society of Japan Expert committee member (Antibody engineering)
  • 2019 - The Division of Structure-Activity Studies, The Pharmaceutical Society of Japan Executive committee, The Symposium of Structure-Activity Relationships
Awards (3)：
  • 2019 - Japanese Biochemical Society JB Award
  • 2015/11 - The Pharmaceutical Society of Japan Award for Excellent Presentation
  • 2008/06 - Protein Science Society of Japan Best Poster Award
Association Membership(s) (13)：
CHEM-BIO INFORMATICS SOCIETY ,  JAPANESE SOCIETY FOR BIOINFORMATICS ,  Japanese Society of Cell Synthesis Research ,  THE JAPANESE SOCIETY FOR ARTIFICIAL INTELLIGENCE ,  The Protein Society ,  THE BIOPHYSICAL SOCIETY OF JAPAN ,  PROTEIN SCIENCE SOCIETY OF JAPAN ,  The Association for Natural Language Processing ,  The Japan Society of Drug Delivery System ,  The Japanese Society for Vaccinology ,  Japanese Society for Immunology ,  THE MOLECULAR SIMULATION SOCIETY OF JAPAN ,  THE PHARMACEUTICAL SOCIETY OF JAPAN
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