2004 - 2005 Development of algorithms for efficient comparison, search and discovery of biological small molecules
2003 - 2004 Development of algorithms for efficient comparison, search and discovery of small molecules to bind to macromolecules
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Papers (237)：
Masaaki Ishikawa, Zhiqian Jiang, Canh Hao Nguyen, Hiroatsu Hatsukawa, Hiroshi Mamitsuka. Clinical Key Features Uncovered by Blood Eosinophilia-Based Machine Learning Classification of Chronic Rhinosinusitis. International forum of allergy & rhinology. 2025
Peter Petschner, Anh Duc Nguyen, Canh Hao Nguyen, Hiroshi Mamitsuka. Machine learning for predicting drug-drug interactions: Graph neural networks and beyond. Current Opinion in Systems Biology. 2025. 42. 100551-100551
John Lee, Canh Hao Nguyen, Hiroshi Mamitsuka. Beyond rigid docking: deep learning approaches for fully flexible protein-ligand interactions. Briefings in Bioinformatics. 2025. 26. 5
Dai Hai Nguyen, Hiroshi Mamitsuka, Atsuyoshi Nakamura. Multiple Wasserstein Gradient Descent Algorithm for Multi-Objective Distributional Optimization. Proceedings of the 41st Conference on Uncertainty in Artificial Intelligence (UAI 2025). 2025
Masaaki Ishikawa, Zhiqian Jiang, Canh Hao Nguyen, Hiroatsu Hatsukawa, Tomoyuki Hirai, Hirotaka Matsumoto, Emiko Saito, Kouya Okazaki, Kazuo Endo, Satoru Terada, et al. Uncovering Key Features for Predicting Comorbid Chronic Eosinophilic Pneumonia in Chronic Rhinosinusitis via Machine Learning. International Forum of Allergy & Rhinology. 2025. 15
Machine Learning for Marketing
Global Data Science Publishing 2019 ISBN:9784991044526
Textbook of Machine Learning and Data Mining (with Bioinformatics Applications)
Global Data Science Publishing 2018 ISBN:9784991044502
Methods in Molecular Biology, Volume 1807: Data Mining for Systems Biology: Methods and Protocols, 2nd Edition
Humana Press (Springer) 2018 ISBN:9781493985609
Methods in Molecular Biology, Volume 993: In Silico Models for Drug Discovery
Humana Press (Springer) 2013 ISBN:9781627033411
Methods in Molecular Biology, Volume 939: Data Mining for Systems Biology: Methods and Protocols
Humana Press (Springer) 2012 ISBN:9781627031066
Machine Learning Tutorial with Examples of Biological Applications.
(Seminar 2025)
Machine Learning Tutorial with Examples of Biological Applications.
(Seminar 2025)
Machine Learning Tutorial with Examples of Biological Applications.
(Seminar 2025)
Successful examples II.: machine learning (ML) tutorial and cases of impactful ML method development
(PhD Course: ”A practical guide (with international experts) to using and developing problem-focused, innovative, data-driven bioinformatics methodologies. 2025)
Overview of method development: implementing motivations into the method / model
(PhD Course: ”A practical guide (with international experts) to using and developing problem-focused, innovative, data-driven bioinformatics methodologies. 2025)
2005/04 - 現在 Kyoto University Bioinformatics Center, Institute for Chemical Research Professor
2002/04 - 2005/03 Kyoto University SGI Donation Laboratory, Institute for Chemical Research Visiting Associate Professor
1991/04 - 2002/03 NEC Corporation Research Staff Member
Committee career (104)：
2025/11 - 2025/11 34th ACM International Conference on Information and Knowledge Management (CIKM 2025) Senior Program Committee Member
2024/10 - 2024/10 33rd ACM International Conference on Information and Knowledge Management (CIKM 2024) Senior Program Committee Member
2023/10 - 2023/10 32nd ACM International Conference on Information and Knowledge Management (CIKM 2023) Senior Program Committee Member
2023/09 - 2023/09 European Conference on Machine Learning and Knowledge Discovery in Databases (ECML PKDD 2023) Program Committee Member
2023/08 - 2023/08 29th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2023) Program Committee Member
2023/07 - 2023/07 Fortieth International Conference on Machine Learning (ICML 2023) Program Committee Member
2022/10 - 2022/10 31st ACM International Conference on Information and Knowledge Management (CIKM 2022) Senior Program Committee Member
2022/08 - 2022/08 28th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2022) Program Committee Member
2022/04 - 2022/04 Tenth International Conference on Learning Representations (ICLR 2022) Program Committee Member
2022/02 - 2022/03 Thirty-Sixth AAAI Conference on Artificial Intelligence (AAAI 2022) Program Committee Member
2021/11 - 2021/11 30th ACM International Conference on Information and Knowledge Management (CIKM 2021) Program Committee Member
2021/08 - 2021/08 27th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2021) Program Committee Member
2021/05 - 2021/05 Ninth International Conference on Learning Representations (ICLR 2021) Program Committee Member
2021/02 - 2021/02 Thirty-Fifth AAAI Conference on Artificial Intelligence (AAAI 2021) Program Committee Member
2021/01 - 2021/01 29th International Joint Conference on Artificial Intelligence (IJCAI 2020) Program Committee Member
2020/12 - 2020/12 2020 IEEE International Conference on Big Data (IEEE Big Data 2020) Program Committee Member
2020/11 - 2020/11 20th IEEE International Conference on Data Mining (ICDM 2020) Program Committee Member
2020/10 - 2020/10 29th ACM International Conference on Information and Knowledge Management (CIKM 2020) Program Committee Member
2020/08 - 2020/08 26th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2020) Program Committee Member
2020/02 - 2020/02 34th AAAI Conference on Artificial Intelligence (AAAI 2020) Program Committee Member
2020/02 - 2020/02 18th Asia Pacific Bioinformatics Conference (APBC 2020) Program Committee Member
2019/12 - 2019/12 2019 IEEE International Conference on Big Data (IEEE Big Data 2019) Program Committee Member
2019/11 - 2019/11 28th ACM International Conference on Information and Knowledge Management (CIKM 2019) Program Committee Member
2019/11 - 2019/11 19th IEEE International Conference on Data Mining (ICDM 2019) Program Committee Member
2019/09 - 2019/09 18th International Conference on Bioinformatics (InCoB 2019) Program Committee Member
2019/08 - 2019/08 25th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2019) Program Committee Member
2019/06 - 2019/06 Thirty-sixth International Conference on Machine Learning (ICML 2019) Program Committee Member
2019/01 - 2019/01 17th Asia Pacific Bioinformatics Conference (APBC 2019) Program Committee Member
2018/12 - 2018/12 2018 IEEE International Conference on Big Data (IEEE Big Data 2018) Senior Program Committee Member
2018/11 - 2018/11 18th IEEE International Conference on Data Mining (ICDM 2018) Program Committee Member
2018/11 - 2018/11 30th International Conference on Tools with Artificial Intelligence (ICTAI 2018) Program Committee Member
2018/10 - 2018/10 27th ACM Conference on Information and Knowledge Management (CIKM 2018) Program Committee Member
2018/10 - 2018/10 18th International Conference on Bioinformatics and Bioengineering (BIBE 2018) Program Committee Member
2018/09 - 2018/09 17th International Conference on Bioinformatics (InCoB 2018) Program Committee Member
2018/08 - 2018/08 24th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2018) Program Committee Member
2018/06 - 2018/06 Thirty-fifth International Conference on Machine Learning (ICML 2018) Program Committee Member
2018/01 - 2018/01 16th Asia Pacific Bioinformatics Conference (APBC 2018) Program Committee Member
2017/11 - 2017/11 26th ACM Conference on Information and Knowledge Management (CIKM 2017) Program Committee Member
2017/11 - 2017/11 29th International Conference on Tools with Artificial Intelligence (ICTAI 2017) Program Committee Member
2017/10 - 2017/11 28th International Conference on Genome Informatics (GIW 2017) Program Committee Member
2017/10 - 2017/10 4th IEEE International Conference on Data Science and Advanced Analytics (DSAA 2017) Program Committee Member
2017/09 - 2017/09 16th International Conference on Bioinformatics (InCoB 2017) Program Committee Member
2017/08 - 2017/08 23rd ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2017) Program Committee Member
2017/07 - 2017/07 11th International Workshop on Machine Learning for Systems Biology (MLSB 2017) Program Committee Member
2017/04 - 2017/04 Track on Bioinformatics and Computational Systems Biology, 24th Symposium on Applied Computing (ACM-SAC BIO 2009) Program Committee Member
2017/01 - 2017/01 15th Asia Pacific Bioinformatics Conference (APBC 2017) Program Committee Member
2016/11 - 2016/11 28th International Conference on Tools with Artificial Intelligence (ICTAI 2016) Program Committee Member
2016/10 - 2016/11 16th International Conference on Bioinformatics and Bioengineering (BIBE 2016) Program Committee Member
2016/10 - 2016/10 27th International Conference on Genome Informatics (GIW 2016) Program Committee Co-chair
2016/09 - 2016/09 10th International Workshop on Machine Learning for Systems Biology (MLSB 2016) Program Committee Member
2016/09 - 2016/09 15th International Conference on Bioinformatics (InCoB 2016) Program Committee Member
2016/08 - 2016/08 22nd ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2016) Program Committee Member
2016/04 - 2016/04 20th Pacific Asia Conference on Knowledge Discovery and Data Mining (PAKDD 2016) Program Committee Member
2016/01 - 2016/01 14th Asia Pacific Bioinformatics Conference (APBC 2016) Program Committee Member
2015/11 - 2015/11 Sixth Workshop on Biological Data Mining and its Applications in Healthcare, 14th IEEE International Conference on Data Mining (ICDM 2015) Program Committee Member
2015/09 - 2015/09 26th International Conference on Genome Informatics and 14th International Conference on Bioinformatics (GIW/InCoB 2015) Program Committee Member
2015/08 - 2015/08 21st ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2015) Program Committee Member
2015/05 - 2015/05 19th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD 2015) Program Committee Member
2013/02 - 2015/02 Computational Intelligence Society, IEEE Bioinformatics and Bioengineering Technical Committee Member
2014/12 - 2014/12 Fifth Workshop on Biological Data Mining and its Applications in Healthcare, 13th IEEE International Conference on Data Mining (ICDM 2014) Program Committee Member
2014/08 - 2014/08 20th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD 2014) Program Committee Member
2014/07 - 2014/08 13th International Conference on Bioinformatics (InCoB 2014) Program Committee Member
2014/05 - 2014/05 18th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD 2014) Program Committee Member
2012/04 - 2014/03 Japanese Society for Bioinformatics Board member
2013/09 - 2013/09 12th International Conference on Bioinformatics (InCoB 2013) Program Committee Member
2013/08 - 2013/08 19th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining Conference (KDD 2013) Program Committee Member
2012/10 - 2012/10 11th International Conference on Bioinformatics (InCoB 2012) Program Committee Member
2012/01 - 2012/01 10th Asia Pacific Bioinformatics Conference (APBC 2012) Program Committee Member
2011/12 - 2011/12 22nd International Conference on Genome Informatics (GIW 2011) Program Committee Member
2011/11 - 2011/12 10th International Conference on Bioinformatics (InCoB 2011) Program Committee Member
2011/11 - 2011/11 Third Asian Conference on Machine Learning (ACML 2011) Program Committee Member
2011/10 - 2011/10 20th ACM Conference on Information and Knowledge Management (CIKM 2011) Program Committee Member
2011/06 - 2011/06 21st International Conference on Artificial Neural Networks (ICANN 2011) Program Committee Member and Area Chair
2011/03 - 2011/03 Track on Bioinformatics and Computational Systems Biology, 26th Symposium on Applied Computing (ACM-SAC BIO 2011) Program Committee Member
2007/01 - 2011/03 Association of Asian Societies for Bioinformatics (AASBi) Board Member
2011/01 - 2011/01 9th Asia Pacific Bioinformatics Conference (APBC 2011) Program Committee Member
2010/11 - 2010/11 Second Asian Conference on Machine Learning (ACML 2010) Program Committee Member
2010/10 - 2010/10 19th ACM Conference on Information and Knowledge Management (CIKM 2010) Program Committee Member
2010/09 - 2010/10 8th Conference on Computational Methods in Systems Biology (CMSB 2010) Program Committee Member
2010/08 - 2010/08 International Conference on Bioinformatics and Computational Biology (ACM BCB 2010) Program Committee Member
2010/03 - 2010/03 Track on Bioinformatics and Computational Systems Biology, 25th Symposium on Applied Computing (ACM-SAC BIO 2010) Program Committee Member
2010/01 - 2010/01 8th Asia Pacific Bioinformatics Conference (APBC 2010) Program Committee Member
2009/12 - 2009/12 20th International Conference on Genome Informatics (GIW 2009) Program Committee Member
2009/11 - 2009/11 Workshop on Applications of Machine Learning in Bioinformatics, IEEE International Conference on Bioinformatics & Biomedicine (BIBM 2009) Program Committee Member
2009/11 - 2009/11 First Asian Conference on Machine Learning (ACML 2009) Program Committee Member
2009/06 - 2009/07 17th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2009) & 8th European Conference on Computational Biology (ECCB 2009) Program Committee Member
2009/06 - 2009/06 Ninth IEEE International Conference on Bioinformatics and Bioengineering (BIBE 2009) Program Committee Co-chair
2009/01 - 2009/01 7th Asia Pacific Bioinformatics Conference (APBC 2009) Program Committee Member
2008/12 - 2008/12 19th International Conference on Genome Informatics (GIW 2008) Program Committee Member
2008/07 - 2008/07 16th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2008) Program Committee Member
2007/04 - 2008/03 Japanese Society for Bioinformatics Secretary
2008/01 - 2008/01 6th Asia Pacific Bioinformatics Conference (APBC 2008) Program Committee Member
2007/12 - 2007/12 18th International Conference on Genome Informatics (GIW 2007) Program Committee Chair
2007/07 - 2007/07 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2007) & 6th European Conference on Computational Biology (ECCB 2007) Program Committee Member
2005/04 - 2007/03 Japanese Society for Bioinformatics Board member
2003/04 - 2007/03 Information Processing Society of Japan Secretary, Special Interest Group: Mathematical modeling and Problem Solving (MPS)
2006/12 - 2006/12 17th International Conference on Genome Informatics (GIW 2006) Program Committee Member
2006/10 - 2006/10 Second Biotechnology and Bioinformatics Symposium (BIOT-06) Program Committee Member
2005/10 - 2006/04 Japanese Society for Bioinformatics Member and Chair, Committee on enacting "Bioinformatics Education Curriculum"
2005/12 - 2005/12 16th International Conference on Genome Informatics (GIW 2005) Program Committee Co-chair
2005/08 - 2005/08 Second Biotechnology and Bioinformatics Symposium (BIOT-05) Program Committee Member
2004/12 - 2004/12 15th International Conference on Genome Informatics (GIW 2004) Program Committee Member
2003/12 - 2003/12 14th International Conference on Genome Informatics (GIW 2003) Program Committee Member
2002/07 - 2002/07 2nd Workshop on Data Mining in Bioinformatics (BIOKDD 2002) Program Committee Member
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Awards (4)：
2018/12 - School of Science, Aalto University SCI Awards 2018: Innovation of the Year Using Machine Learning to Tackle the Impending Food Crisis
2014/11 - Dream Challenges Best performer The Broad-DREAM Gene Essentiality Prediction Challenge, Sub-Challenge 1
2014/02 - IEEE Kansai Section IEEE Kansai Section Medal
2009 - IEEE Computer Society Service Award Program Committee Co-chair of the 9th IEEE International Conference on Bioinformatics and Bioengineering
