Murakami Youichi 村上洋一

… Alternative Names

村上洋一ムラカミヨウイチ

MURAKAMI Yoichi 村上洋一

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Researcher Number	20548424
Other IDs
Affiliation (Current)	2025: 東京情報大学, 総合情報学部, 教授
Affiliation (based on the past Project Information) *help	2019 – 2023: 東京情報大学, 総合情報学部, 准教授 2016: 国立研究開発法人医薬基盤・健康・栄養研究所, 医薬基盤研究所創薬デザイン研究センター, プロジェクト研究員 2015: 国立研究開発法人医薬基盤・健康・栄養研究所, 医薬基盤研究所バイオインフォマティクスプロジェクト, プロジェクト研究員 2015: 国立研究開発法人医薬基盤・健康・栄養研究所, 医薬基盤研究所, プロジェクト研究員 2014: 東北大学, 情報科学研究科, 教育研究支援者
Review Section/Research Field	Principal Investigator Basic Section 62010:Life, health and medical informatics-related / System genome science Except Principal Investigator Basic Section 58050:Fundamental of nursing-related / Basic Section 58080:Gerontological nursing and community health nursing-related / System genome science
Keywords	Principal Investigator タンパク質間相互作用予測 / バイオインフォマティクス / 創薬支援 / 機械学習 / タンパク質間相互作用 / 創薬支援システム / タンパク質間相互作用部位予測 / テキストマイニング / 予測 / アミノ酸残基 / アミノ酸保存度 / タンパク質機能 … More Except Principal Investigator … More AI / 拡張知能 / 機械学習 / 情報教育 / 看護情報学 / 情報セキュリティ / 地域包括ケア / 生体センシング / 遠隔医療 / 特徴量 / アプリケーション / 医療情報 / セルフモニタリング / 遠隔看護 / Artificial Intelligence / Extended Intelligence / 訪問看護師 / 臨床判断 / AI技術 / 判断支援 / 訪問看護 / 意思決定支援 / 看護臨床判断 / 看護観察技術 / 意思決定 / 生体情報 / バイタルサイン / 臨床判断支援 / タンパク質相互作用 / 創薬ターゲット / データベース Less

Prediction of binding sites between proteins by deep learning, and development of the system to help facilitate target site selectionPrincipal Investigator
- Principal Investigator
  
  村上洋一
- Project Period (FY)
  2020 – 2024
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Tokyo University of Information Sciences
Development of a self-monitoring system for "medical care with patients" by telenursing
- Principal Investigator
  
  KAWAGUCHI TAKAYASU
- Project Period (FY)
  2020 – 2022
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 58050:Fundamental of nursing-related
- Research Institution
  Iryo Sosei University
  Tokyo University of Information Sciences
Creation of new technology for utilization of AI to support clinical judgment in nursing
- Principal Investigator
  
  Ito Yoshiaki
- Project Period (FY)
  2019 – 2022
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 58050:Fundamental of nursing-related
- Research Institution
  Iryo Sosei University
  Tokyo University of Information Sciences
Construction of AI and Utilization of Extended Intelligence (EI) on Nursing Decision Support System for Home Health Care
- Principal Investigator
  
  Kasai Yoshimi
- Project Period (FY)
  2019 – 2021
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 58080:Gerontological nursing and community health nursing-related
- Research Institution
  Iryo Sosei University
  Tokyo University of Information Sciences
Development of a sequence-based prediction method of interacting protein partners for drug target discoveryPrincipal Investigator
- Principal Investigator
  
  Murakami Yoichi
- Project Period (FY)
  2014 – 2016
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  System genome science
- Research Institution
  National Institutes of Biomedical Innovation, Health and Nutrition
  Tohoku University
Development of a target discovery platform by integrating data warehousing and protein function prediction
- Principal Investigator
  
  Mizuguchi Kenji
- Project Period (FY)
  2013 – 2015
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  System genome science
- Research Institution
  National Institutes of Biomedical Innovation, Health and Nutrition

All 2023 2022 2017 2016 2015 2014 2013

All Journal Article Presentation Patent

[Journal Article] Analysis of relationships between protein sequence embeddings and their sequence/structural features2023
- Author(s)
  Satsuki Ueta, Yoichi Murakami
- Journal Title
  
  研究報告数理モデル化と問題解決（MPS）
  
  Volume: 2023-MPS-142 Pages: 1-3
- Data Source
  KAKENHI-PROJECT-20K12048
[Journal Article] Recent developments of sequence-based prediction of protein?protein interactions2022
- Author(s)
  Murakami Yoichi, Mizuguchi Kenji
- Journal Title
  
  Biophysical Reviews
  
  Volume: 14 Issue: 6 Pages: 1393-1411
- DOI
  10.1007/s12551-022-01038-1
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K12048
[Journal Article] Network analysis and in silico prediction of protein-protein interactions with applications in drug discovery2017
- Author(s)
  Yoichi Murakami, Lokesh P Tripathi, Philip Prathipati and Kenji Mizuguchi
- Journal Title
  
  Current Opinion of Structural Biology
  
  Volume: 44 Pages: 134-142
- DOI
  10.1016/j.sbi.2017.02.005
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-26870045
[Journal Article] NLDB: a database for 3D protein-ligand interactions in enzymatic reactions2016
- Author(s)
  Yoichi Murakami, Satoshi Omori, and Kengo Kinoshita
- Journal Title
  
  J Struct Funct Genomics
  
  Volume: 17 Issue: 4 Pages: 101-110
- DOI
  10.1007/s10969-016-9206-0
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-15H02773, KAKENHI-PROJECT-26870045
[Journal Article] Homology-based prodection of interactions between proteins using Averaged One-Dependence Estimators2014
- Author(s)
  Mizuguchi K., Murakami Y.
- Journal Title
  
  BMC bioinformatics
  
  Volume: 15 Issue: 1 Pages: 213-213
- DOI
  10.1186/1471-2105-15-213
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-25430186, KAKENHI-PROJECT-26870045
[Journal Article] Brefeldin A-inhibited guanine nucleotide-exchange protein 3 (BIG3) is predicted to interact with its partner through an ARM-type α-helical structure2014
- Author(s)
  Mizuguchi K., Chen Y. A., Murakami Y., Ahmad S., Yoshimaru T., Katagri T.
- Journal Title
  
  BMC Res Notes
  
  Volume: 7 Issue: 1 Pages: 435-435
- DOI
  10.1186/1756-0500-7-435
- NAID
  120006864075
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-25430186, KAKENHI-PROJECT-26461948, KAKENHI-PROJECT-26870045
[Journal Article] Targeting BIG3-PHB2 interaction to overcome tamoxifen resistance in breast cancer cells2013
- Author(s)
  T. Yoshimaru, M. Komatsu, T. Matsuo, Y.-A. Chen, Y. Murakami, K. Mizuguchi, E. Mizohata, T. Inoue, M. Akiyama, R. Yamaguchi, S. Imoto, S. Miyano, Y. Miyoshi, M. Sasa, Y. Nakamura, and T. Katagiri
- Journal Title
  
  Nature Communications
  
  Volume: 4 Issue: 1 Pages: 2433-2433
- DOI
  10.1038/ncomms3443
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-24109017, KAKENHI-PUBLICLY-25134712, KAKENHI-PROJECT-25293079, KAKENHI-PROJECT-25430186
[Patent] エピトープ均質化パネル、ならびにその作製方法および利用2017
- Inventor(s)
  近藤裕郷、鎌田春彦、永田諭志、水口賢司、村上洋一
- Industrial Property Rights Holder
  近藤裕郷、鎌田春彦、永田諭志、水口賢司、村上洋一
- Industrial Property Rights Type
  特許
- Industrial Property Number
  2017-021553
- Filing Date
  2017-02-08
- Data Source
  KAKENHI-PROJECT-26870045
[Presentation] Application of a Doc2Vec-based machine learning method toward more reliable prediction of human protein-protein interactions2023
- Author(s)
  上田さつき，村上洋一
- Organizer
  CBI学会2023年大会
- Data Source
  KAKENHI-PROJECT-20K12048
[Presentation] タンパク質の分散表現とその配列・構造的特徴の関係性に関する解析2023
- Author(s)
  上田さつき，村上洋一
- Organizer
  第142回 MPS・第73回BIO合同研究発表会
- Data Source
  KAKENHI-PROJECT-20K12048
[Presentation] Analysis of the relationship between the distributed representations of protein sequences and their structures2022
- Author(s)
  上田さつき，富田瑞樹，朴鍾杰，村上洋一
- Organizer
  2022年度バイオインフォマティクス年会　第11回生命医薬情報学連合大会
- Data Source
  KAKENHI-PROJECT-20K12048
[Presentation] 薬物による Kir1.1 チャネル阻害の基盤2016
- Author(s)
  古谷和春、半田健一郎、村上洋一、木下賢吾、倉智嘉久
- Organizer
  第89回日本薬理学会年会
- Place of Presentation
  神奈川　パシフィコ横浜　会議センター
- Year and Date
  2016-03-09
- Data Source
  KAKENHI-PROJECT-26870045
[Presentation] Prediction of 3D protein-ligand interactions in enzymatic reactions2016
- Author(s)
  村上洋一、大森聡、木下賢吾
- Organizer
  構造活性相関シンポジウム
- Place of Presentation
  京都大学医学部創立百年記念施設・芝蘭会館（京都）
- Data Source
  KAKENHI-PROJECT-26870045
[Presentation] Prediction of interacting protein pairs using homology-based approach2016
- Author(s)
  村上洋一、水口賢司
- Organizer
  第 5 回生命医薬情報学連合大会
- Place of Presentation
  東京国際交流館プラア平成（東京お台場）
- Year and Date
  2016-09-29
- Data Source
  KAKENHI-PROJECT-26870045
[Presentation] Prediction of interacting proteins from homologous protein-protein interactions2016
- Author(s)
  村上洋一、水口賢司
- Organizer
  CBI 学会2016年大会
- Place of Presentation
  タワーホール船堀（東京）
- Year and Date
  2016-10-25
- Data Source
  KAKENHI-PROJECT-26870045
[Presentation] Kir1.1 チャネルにおける小分子結合部位の構造活性相関解析2016
- Author(s)
  古谷和春、半田健一郎、村上洋一、木下賢吾、倉智嘉久
- Organizer
  第93回日本生理学会大会
- Place of Presentation
  北海道　札幌コンベンションセンター
- Year and Date
  2016-03-22
- Data Source
  KAKENHI-PROJECT-26870045
[Presentation] A database for protein-ligand complexes in enzymatic reaction2015
- Author(s)
  村上洋一
- Organizer
  情報計算化学生物学会
- Place of Presentation
  東京　タワーホール船堀
- Year and Date
  2015-10-27
- Data Source
  KAKENHI-PROJECT-26870045
[Presentation] A machine learning approach for predicting protein-protein interactions2015
- Author(s)
  Yoichi Murakami
- Organizer
  IPR Seminar
- Place of Presentation
  Institute for Protein Research, Osaka University.
- Year and Date
  2015-03-06
- Data Source
  KAKENHI-PROJECT-26870045

1. Ito Yoshiaki (60804870)

# of Collaborated Projects: 3 results

# of Collaborated Products: 0 results
2. KAWAGUCHI TAKAYASU (40214613)

# of Collaborated Projects: 3 results

# of Collaborated Products: 0 results
3. Kasai Yoshimi (70384154)

# of Collaborated Projects: 3 results

# of Collaborated Products: 0 results
4. 大石朋子 (40413257)

# of Collaborated Projects: 3 results

# of Collaborated Products: 0 results
5. 豊増佳子 (60276657)

# of Collaborated Projects: 3 results

# of Collaborated Products: 0 results
6. 今井哲郎 (10436173)

# of Collaborated Projects: 3 results

# of Collaborated Products: 0 results
7. Mizuguchi Kenji (50450896)

# of Collaborated Projects: 1 results

# of Collaborated Products: 2 results
8. 日向野香織 (10709695)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
9. 木村穣 (60298859)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
10. 高橋道明 (90710814)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
11. 浅野美礼 (00273417)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
12. 中村努

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
13. 井上豪

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
14. 木下賢吾

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

Murakami Youichi 村上 洋一

村上 洋一 ムラカミ ヨウイチ

MURAKAMI Yoichi 村上 洋一

Research Projects

Research Products

Co-Researchers

Prediction of binding sites between proteins by deep learning, and development of the system to help facilitate target site selectionPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Development of a self-monitoring system for "medical care with patients" by telenursing

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Creation of new technology for utilization of AI to support clinical judgment in nursing

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Construction of AI and Utilization of Extended Intelligence (EI) on Nursing Decision Support System for Home Health Care

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Development of a sequence-based prediction method of interacting protein partners for drug target discoveryPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

Development of a target discovery platform by integrating data warehousing and protein function prediction

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

[Journal Article] Analysis of relationships between protein sequence embeddings and their sequence/structural features2023

Author(s)

Journal Title

Data Source

[Journal Article] Recent developments of sequence-based prediction of protein?protein interactions2022

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Network analysis and in silico prediction of protein-protein interactions with applications in drug discovery2017

Author(s)

Journal Title

DOI

Data Source

[Journal Article] NLDB: a database for 3D protein-ligand interactions in enzymatic reactions2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Homology-based prodection of interactions between proteins using Averaged One-Dependence Estimators2014

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Brefeldin A-inhibited guanine nucleotide-exchange protein 3 (BIG3) is predicted to interact with its partner through an ARM-type α-helical structure2014

Author(s)

Journal Title

DOI

NAID

Data Source

[Journal Article] Targeting BIG3-PHB2 interaction to overcome tamoxifen resistance in breast cancer cells2013

Author(s)

Journal Title

DOI

Data Source

[Patent] エピトープ均質化パネル、ならびにその作製方法および利用2017

Inventor(s)

Industrial Property Rights Holder

Murakami Youichi 村上洋一

村上洋一ムラカミヨウイチ

MURAKAMI Yoichi 村上洋一