Rchr
J-GLOBAL ID：200901032402919970   Update date: Apr. 13, 2024

Onami Shuichi

オオナミ シュウイチ | Onami Shuichi
Affiliation and department：
RIKEN Center for Biosystems Dynamics Research

About RIKEN Center for Biosystems Dynamics Research


Job title： Team Leader
Other affiliations (6)：
  • RIKEN  TRIP Headquarters   Team Leader
  • RIKEN  Information R&D and Strategy Headquaters   Unit Leader
  • Kobe University  Graduate School of Medicine   Visiting Professor
  • Osaka University  Graduate School of Frontier Biosciences 
  • Osaka University  Institute for Open and Trasdiciplinary Research Initiatives   Invited Professor
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Homepage URL  (2)： http://www.riken.jp/research/labs/bdr/dev_dyn/ ,  http://www.riken.jp/en/research/labs/bdr/dev_dyn/
Research field  (3)： Biological, health, and medical informatics ,  Systems genomics ,  Biophysics
Research theme for competitive and other funds  (8)：
  • 2022 - 2028 Advanced Bioimaging Support
  • 2022 - 2027 Development of a global data sharing system for bioimaging data
  • 2021 - 2025 虹色発光線虫に基づく生きた総合病院・環境診断センターの創成
  • 2019 - 2024 Dynamic epithelial-mesenchymal interactions in the emergence of integumentary diversity
  • 2018 - 2023 Development of Informatics technologies for identification and analysis of singularity cells
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Papers (57)：
  • Josh Moore, Daniela Basurto-Lozada, Sébastien Besson, John Bogovic, Jordão Bragantini, Eva M Brown, Jean-Marie Burel, Xavier Casas Moreno, Gustavo de Medeiros, Erin E Diel, et al. OME-Zarr: a cloud-optimized bioimaging file format with international community support. Histochemistry and cell biology. 2023. 160. 3. 223-251
  • Taro Ichimura, Taishi Kakizuka, Yuki Sato, Keiko Itano, Kaoru Seiriki, Hitoshi Hashimoto, Hiroya Itoga, Shuichi Onami, Takeharu Nagai. Volumetric trans-scale imaging of massive quantity of heterogeneous cell populations in centimeter-wide tissue and embryo. 2023
  • Tadasu Nozaki, Soya Shinkai, Satoru Ide, Koichi Higashi, Sachiko Tamura, Masa A Shimazoe, Masaki Nakagawa, Yutaka Suzuki, Yasushi Okada, Masaki Sasai, et al. Condensed but liquid-like domain organization of active chromatin regions in living human cells. Science advances. 2023. 9. 14. eadf1488
  • Yusuke Azuma, Hatsumi Okada, Shuichi Onami. Systematic analysis of cell morphodynamics in C. elegans early embryogenesis. Frontiers in bioinformatics. 2023. 3. 1082531-1082531
  • Ito, Eisuke, Ueda, Takuya, Takano, Ryo, Tohsato, Yukako, Kyoda, Koji, Onami, Shuichi, Nishikawa, Ikuko. Phenotype anomaly detection for biological dynamics data using a deep generative model. Proceedings of the 31st International Conference on Artificial Neural Networks (ICANN 2022). Lecture Notes in Computer Science (LNCS). 2022. 13530. 432-444
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MISC (54)：
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Books (10)：
  • 空間オミクス解析スタートアップ実践ガイド : 最新機器の特徴と目的に合った選び方、データ解析と応用例を学び、シングルセル解析の一歩その先へ!
    羊土社 2023 ISBN:9784758122610
  • バイオ画像解析手とり足とりガイド バイオイメージと定量データのデータベース.
    羊土社 2014 ISBN:9784758108157
  • 生命のビッグデータ利用の最前線 バイオイメージ・インフォマティクスが切り開く新しい生命科学の可能性
    シーエムシー出版 2014 ISBN:9784781305370
  • 理論生物学 : 生命科学の新しい潮流 細胞骨格の力に依存した細胞構造の動態
    共立出版 2011 ISBN:9784320057135
  • Introduction to Systems Biology DBRF-MEGN method: an algorithm for inferring gene regulatory networks from large-scale gene expression profiles
    Totowa, NJ, United States, Humana Press Inc. 2010 ISBN:9781617377297
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Lectures and oral presentations  (263)：
  • SSBD:database / SSBD:repository - global sharing of bioimaging data
    (2023)
  • SSBD:repository/database:バイオイメージングデータのグローバルなデータ共有
    (2023)
  • 理研オープンライフサイエンスプラットフォームの紹介および活動報告
    (2023)
  • SSBD:database, SSBD:repository, Data platform and Data portal for Singularity Biology - シンギュラリティ生物学のためのSSBD、データプラットフォーム、データポータルの取り組み
    (2023)
  • バイオイメージングデータの次世代フォーマット開発と解析ワー クフロー基盤の開発構想
    (2023)
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Education (2)：
  • - 1998 The Graduate University for Advanced Studies School of Life Science
  • - 1994 The University of Tokyo Department of Veterinary Medical Science
Professional career (1)：
  • Ph.D. (The Graduate University for Advanced Studies)
Work history (17)：
  • 2024/04 - 現在 RIKEN TRIP Headquarters Research DX Team Team Leader
  • 2024/04 - 現在 Kobe University Graduate School of Medicine Visiting Professor
  • 2021/06 - 現在 Osaka University Institute for Open and Transdisciplinary Research Initiatives, OTRI Invited Professor
  • 2021/04 - 現在 RIKEN Information R&D and Strategy Headquarters, Infrastructure Research and Development Division, Life Science Data Sharig Unit Unit Leader
  • 2019 - 現在 特定非営利活動法人システムバイオロジー研究機構 理事
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Awards (1)：
  • 2021/07 - The Japanese Society for Artificial Intelligence JSAI Annual Conference Award (2021) Ontology development for building a knowledge base in the life science and structuring knowledge for elucidating the COVID-19 mechanism
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