Ishida Takashi 石田貴士

Researcher Number	40508355
Other IDs
Affiliation (Current)	2025: 東京科学大学, 情報理工学院, 教授
Affiliation (based on the past Project Information) *help	2024: 東京工業大学, 情報理工学院, 准教授 2016 – 2020: 東京工業大学, 情報理工学院, 准教授 2015: 東京工業大学, 情報理工学(系)研究科, 准教授
Review Section/Research Field	Principal Investigator Basic Section 62010:Life, health and medical informatics-related / Life / Health / Medical informatics Except Principal Investigator Basic Section 57080:Social dentistry-related
Keywords	Principal Investigator タンパク質立体構造 / ヴァーチャル・スクリーニング / ３次元畳み込みニューラルネットワーク / グラフニューラルネットワーク / タンパク質ポケット構造 / エンドツーエンド表現学習 / 3次元畳み込みニューラルネットワーク / 薬剤活性予測 / リガンド結合ポケット / ヴァーチャルスクリーニング … More / 化合物活性予測 / 深層学習 / タンパク質ポケット探索 / ランキング学習 / 創薬標的タンパク質選択 / シャーガス病 / 顧みられない熱帯病 / 創薬標的タンパク質選定 / 適合性フィードバック / タンパク質立体構造予測 / トリパノソーマ寄生原虫症 … More Except Principal Investigator XAI / 画像診断 / 口臭 Less

Development and Research of a Halitosis Imaging Diagnosis System Using XAI (Explainable Artificial Intelligence)
- Principal Investigator
  
  財津崇
- Project Period (FY)
  2024 – 2026
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 57080:Social dentistry-related
- Research Institution
  Tokyo Medical and Dental University
Structure-based ligand activity prediction using 3-dimensional convolution neural networkPrincipal Investigator
- Principal Investigator
  
  Ishida Takashi
- Project Period (FY)
  2018 – 2020
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Tokyo Institute of Technology
Improvement of target protein selection in NTDs based on large-scale protein structure predictionPrincipal Investigator
- Principal Investigator
  
  Ishida Takashi
- Project Period (FY)
  2015 – 2017
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Life / Health / Medical informatics
- Research Institution
  Tokyo Institute of Technology

All 2021 2020 2019 2018 2017 2016

All Journal Article Presentation

[Journal Article] Single-Step Retrosynthesis Prediction Based on the Identification of Potential Disconnection Sites Using Molecular Substructure Fingerprints2021
- Author(s)
  Hasic Haris、Ishida Takashi
- Journal Title
  
  Journal of Chemical Information and Modeling
  
  Volume: 61 Issue: 2 Pages: 641-652
- DOI
  10.1021/acs.jcim.0c01100
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18K11524
[Journal Article] P3CMQA: Single-Model Quality Assessment Using 3DCNN with Profile-Based Features2021
- Author(s)
  Takei Yuma、Ishida Takashi
- Journal Title
  
  Bioengineering
  
  Volume: 8 Issue: 3 Pages: 40-40
- DOI
  10.3390/bioengineering8030040
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-18K11524
[Journal Article] Sequence alignment generation using intermediate sequence search for homology modeling2020
- Author(s)
  Makigaki Shuichiro、Ishida Takashi
- Journal Title
  
  Computational and Structural Biotechnology Journal
  
  Volume: 18 Pages: 2043-2050
- DOI
  10.1016/j.csbj.2020.07.012
- NAID
  120007039217
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18K11524
[Journal Article] End-to-End Learning Based Compound Activity Prediction Using Binding Pocket Information2019
- Author(s)
  Tanebe Toshitaka、Ishida Takashi
- Journal Title
  
  2019 International Conference on Intelligent Computing
  
  Volume: 11644 Pages: 226-234
- DOI
  10.1007/978-3-030-26969-2_21
- ISBN
  9783030269685, 9783030269692
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18K11524
[Journal Article] Protein model accuracy estimation based on local structure quality assessment using 3D convolutional neural network2019
- Author(s)
  Sato Rin、Ishida Takashi
- Journal Title
  
  PLOS ONE
  
  Volume: 14 Issue: 9 Pages: 221347-221347
- DOI
  10.1371/journal.pone.0221347
- NAID
  120006889233
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-18K11524
[Journal Article] Sequence alignment using machine learning for accurate template-based protein structure prediction2019
- Author(s)
  Makigaki Shuichiro、Ishida Takashi
- Journal Title
  
  Bioinformatics
  
  Volume: 36 Issue: 1 Pages: 104-111
- DOI
  10.1093/bioinformatics/btz483
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18K11524
[Journal Article] Spresso: An ultrafast compound pre-screening method based on compound decomposition2017
- Author(s)
  Keisuke Yanagisawa, Shunta Komine, Shogo D. Suzuki, Masahito Ohue, Takashi Ishida, Yutaka Akiyama
- Journal Title
  
  Bioinformatics
  
  Volume: 印刷中 Issue: 23 Pages: 3836-3843
- DOI
  10.1093/bioinformatics/btx178
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-24240044, KAKENHI-PROJECT-15H02776, KAKENHI-PROJECT-15K16081, KAKENHI-PROJECT-15K16082, KAKENHI-PROJECT-17H01814, KAKENHI-PROJECT-17J06897
[Journal Article] In silico, in vitro, X-ray crystallography, and integrated strategies for discovering spermidine synthase inhibitors for Chagas disease2017
- Author(s)
  Yoshino Ryunosuke、Yasuo Nobuaki、Hagiwara Yohsuke、Ishida Takashi、Inaoka Daniel Ken、Amano Yasushi、Tateishi Yukihiro、Ohno Kazuki、Namatame Ichiji、Niimi Tatsuya、Orita Masaya、Kita Kiyoshi、Akiyama Yutaka、Sekijima Masakazu
- Journal Title
  
  Scientific Reports
  
  Volume: 7 Issue: 1 Pages: 1-9
- DOI
  10.1038/s41598-017-06411-9
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15H02776, KAKENHI-PROJECT-17H01814, KAKENHI-PROJECT-16J09021, KAKENHI-PROJECT-15K16082, KAKENHI-PROJECT-16K19114
[Presentation] GCMQA: Graph convolutional neural network for model quality assessment2019
- Author(s)
  Rin Sato and Takashi Ishida
- Organizer
  第八回生命医薬情報学連合会
- Data Source
  KAKENHI-PROJECT-18K11524
[Presentation] ポケット構造情報を考慮したエンドツーエンド表現学習によるリガンド結合予測2019
- Author(s)
  種部俊孝、石田貴士
- Organizer
  情報処理学会第57回BIO研究発表会
- Data Source
  KAKENHI-PROJECT-18K11524
[Presentation] タンパク質配列情報と薬剤結合部位構造情報を用いた新規タンパク質に対する深層学習リガンド結合予測2019
- Author(s)
  松村真里, 石田貴士
- Organizer
  第八回生命医薬情報学連合会
- Data Source
  KAKENHI-PROJECT-18K11524
[Presentation] グラフ畳み込みを用いたタンパク質予測立体構造の評価手法の開発2019
- Author(s)
  佐藤倫、石田貴士
- Organizer
  情報処理学会第57回BIO研究発表会
- Data Source
  KAKENHI-PROJECT-18K11524
[Presentation] 深層学習を用いたタンパク質予測立体構造モデルの評価2018
- Author(s)
  佐藤倫、石田貴士
- Organizer
  情報処理学会第54回BIO研究会
- Data Source
  KAKENHI-PROJECT-18K11524
[Presentation] 3次元畳み込みニューラルネットワークを用いたタンパク質予測立体構造の評価手法の開発2018
- Author(s)
  佐藤倫、石田貴士
- Organizer
  生命医薬情報学連合大会2018年大会
- Data Source
  KAKENHI-PROJECT-18K11524
[Presentation] タンパク質ポケット構造情報を考慮した機会学習によるリガンド結合予測2018
- Author(s)
  種部俊孝、石田貴士
- Organizer
  生命医薬情報学連合大会2018年大会
- Data Source
  KAKENHI-PROJECT-18K11524
[Presentation] 薬剤標的タンパク質選定支援に向けた立体構造上での株間変異情報表示システムの開発2017
- Author(s)
  大石智博，石田貴士
- Organizer
  情報処理学会第50回バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-15K16082
[Presentation] 適合性フィードバックを用いたトリパノソーマ原虫症薬剤標的タンパク質選定の改良2017
- Author(s)
  曽我光瑛，石田貴士
- Organizer
  情報処理学会　第53回バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-15K16082
[Presentation] ランク学習を用いたNTDs薬剤標的タンパク質候補選択の改良2016
- Author(s)
  曽我光瑛, 石田貴士
- Organizer
  情報処理学会第46回バイオ情報学研究会
- Place of Presentation
  沖縄
- Data Source
  KAKENHI-PROJECT-15K16082
[Presentation] Improvement of NTDs drug target protein selection by learning to rank2016
- Author(s)
  Mitsuaki Soga, Takashi Ishida
- Organizer
  Informatics in Biology, Medicine and Pharmacology 2016 (IIBMP2016)
- Place of Presentation
  Tokyo
- Data Source
  KAKENHI-PROJECT-15K16082
[Presentation] Prediction of Protein-Ligand Binding Sites Using 3D Convolutional Neural Networks2016
- Author(s)
  Naoto Kakami, Takashi Ishida
- Organizer
  Informatics in Biology, Medicine and Pharmacology 2016 (IIBMP2016)
- Place of Presentation
  Tokyo
- Data Source
  KAKENHI-PROJECT-15K16082
[Presentation] 3次元畳み込みニューラルネットワークを用いたタンパク質リガンド結合ポケットの予測2016
- Author(s)
  各務直人, 石田貴士
- Organizer
  情報処理学会第46回バイオ情報学研究会
- Place of Presentation
  沖縄
- Data Source
  KAKENHI-PROJECT-15K16082

1. 財津崇 (80611508)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
2. AKIYAMA Yutaka

# of Collaborated Projects: 0 results

# of Collaborated Products: 2 results
3. SEKIJIMA Masakazu

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
4. Kita Kiyoshi

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

Ishida Takashi 石田 貴士

Research Projects

Research Products

Co-Researchers

Development and Research of a Halitosis Imaging Diagnosis System Using XAI (Explainable Artificial Intelligence)

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Structure-based ligand activity prediction using 3-dimensional convolution neural networkPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Improvement of target protein selection in NTDs based on large-scale protein structure predictionPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

[Journal Article] Single-Step Retrosynthesis Prediction Based on the Identification of Potential Disconnection Sites Using Molecular Substructure Fingerprints2021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] P3CMQA: Single-Model Quality Assessment Using 3DCNN with Profile-Based Features2021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Sequence alignment generation using intermediate sequence search for homology modeling2020

Author(s)

Journal Title

DOI

NAID

Data Source

[Journal Article] End-to-End Learning Based Compound Activity Prediction Using Binding Pocket Information2019

Author(s)

Journal Title

DOI

ISBN

Data Source

[Journal Article] Protein model accuracy estimation based on local structure quality assessment using 3D convolutional neural network2019

Author(s)

Journal Title

DOI

NAID

Data Source

[Journal Article] Sequence alignment using machine learning for accurate template-based protein structure prediction2019

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Spresso: An ultrafast compound pre-screening method based on compound decomposition2017

Author(s)

Journal Title

DOI

Data Source

[Journal Article] In silico, in vitro, X-ray crystallography, and integrated strategies for discovering spermidine synthase inhibitors for Chagas disease2017

Author(s)

Journal Title

DOI

Data Source

[Presentation] GCMQA: Graph convolutional neural network for model quality assessment2019

Author(s)

Organizer

Data Source

[Presentation] ポケット構造情報を考慮したエンドツーエンド表現学習によるリガンド結合予測2019

Author(s)

Organizer

Data Source

[Presentation] タンパク質配列情報と薬剤結合部位構造情報を用いた新規タンパク質に対する深層学習リガンド結合予測2019

Author(s)

Organizer

Data Source

[Presentation] グラフ畳み込みを用いたタンパク質予測立体構造の評価手法の開発2019

Author(s)

Organizer

Ishida Takashi 石田貴士