• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to previous page

A new rotation-translation invariant molecular encoding and its use in Computer-Aided Drug-Discovery

Research Project

Project/Area Number 17F17051
Research Category

Grant-in-Aid for JSPS Fellows

Allocation TypeSingle-year Grants
Section外国
Research Field Life / Health / Medical informatics
Research InstitutionKyushu Institute of Technology (2018)
Kyushu University (2017)

Principal Investigator

山西 芳裕  九州工業大学, 大学院情報工学研究院, 教授 (60437267)

Co-Investigator(Kenkyū-buntansha) BERENGER FRANCOIS  九州工業大学, 大学院情報工学研究院, 外国人特別研究員
Project Period (FY) 2017-07-26 – 2019-03-31
Project Status Completed (Fiscal Year 2018)
Budget Amount *help
¥2,300,000 (Direct Cost: ¥2,300,000)
Fiscal Year 2018: ¥1,100,000 (Direct Cost: ¥1,100,000)
Fiscal Year 2017: ¥1,200,000 (Direct Cost: ¥1,200,000)
KeywordsLBVS / QSAR / applicability domain
Outline of Annual Research Achievements

I have been working on computational methods on chemoinformatics research. I have created the "Distance-Based Boolean Applicability Domain". In ligand-based modeling, one must create a model but also an applicability domain for that model. Existing methods are complex, hard to implement or difficult to interpret. They require a threshold or embed an empiric constant. I proposed a trivial to interpret domain. In High Throughput Screening data set modeling experiments, our domain improves the performance and early retrieval of models, while improving the scaffold diversity among top-ranked active molecules. I have published two articles in peer reviewed journals and presented posters at international conferences. I have released open source programs and libraries for chemoinformatics research. I have done some modeling for protein targets of interest to our team.

Research Progress Status

平成30年度が最終年度であるため、記入しない。

Strategy for Future Research Activity

平成30年度が最終年度であるため、記入しない。

Report

(2 results)
  • 2018 Annual Research Report
  • 2017 Annual Research Report
  • Research Products

    (10 results)

All 2019 2018 2017

All Journal Article (4 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 4 results,  Open Access: 3 results) Presentation (6 results) (of which Int'l Joint Research: 2 results,  Invited: 1 results)

  • [Journal Article] Chemoinformatics and structural bioinformatics in OCaml.2019

    • Author(s)
      Berenger F, Zhang KYJ, Yamanishi Y.
    • Journal Title

      J Cheminform.

      Volume: 11 Issue: 1 Pages: 10-10

    • DOI

      10.1186/s13321-019-0332-0

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] A Distance-Based Boolean Applicability Domain for Classification of High Throughput Screening Data.2019

    • Author(s)
      Berenger F, Yamanishi Y.
    • Journal Title

      J Chem Inf Model.

      Volume: 59 Issue: 1 Pages: 463-476

    • DOI

      10.1021/acs.jcim.8b00499

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Fragger: a protein fragment picker for structural queries2018

    • Author(s)
      Berenger Francois、Simoncini David、Voet Arnout、Shrestha Rojan、Zhang Kam Y.J.
    • Journal Title

      F1000Research

      Volume: 6 Pages: 1722-1722

    • DOI

      10.12688/f1000research.12486.2

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Consensus queries in ligand-based virtual screening experiments2017

    • Author(s)
      Berenger Francois、Vu Oanh、Meiler Jens
    • Journal Title

      Journal of Cheminformatics

      Volume: 9 Issue: 1 Pages: 60-60

    • DOI

      10.1186/s13321-017-0248-5

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] A Distance-Based Boolean Applicability Domain for Classification of HTS Data2019

    • Author(s)
      Berenger, F. and Yamanishi, Y.
    • Organizer
      OpenEye CUP XIX
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Combining a bisector tree with the Tanimoto distance for similarity searches and beyond2018

    • Author(s)
      Berenger, F. and Yamanishi, Y.
    • Organizer
      The 7th French-Japanese Workshop on Computational Methods in Chemistry
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Combining a bisector tree with the Tanimoto distance for similarity searches and beyond2018

    • Author(s)
      Berenger, F. and Yamanishi, Y.
    • Organizer
      第41回ケモインフォマティクス討論会
    • Related Report
      2018 Annual Research Report
  • [Presentation] Consensus queries in ligand-based virtual screening experiments2017

    • Author(s)
      Francois Berenger
    • Organizer
      Society of Computer Chemistry Japan (SCCJ), 2017 fall meeting
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] A new rotation-translation invariant molecular descriptor for Ligand-Based Virtual Screening and beyond2017

    • Author(s)
      Francois Berenger and Yoshihiro Yamanishi
    • Organizer
      Chem-Bio Informatics Society(CBI) Annual Meeting 2017
    • Related Report
      2017 Annual Research Report
  • [Presentation] A new rotation-translation invariant molecular descriptor for Ligand-Based Virtual Screening and beyond2017

    • Author(s)
      Francois Berenger and Yoshihiro Yamanishi
    • Organizer
      Informatics In Biology, Medicine and Pharmacology (IIBMP) 2017
    • Related Report
      2017 Annual Research Report

URL: 

Published: 2017-07-28   Modified: 2024-03-26  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi