論文

• Yasuo Tabei, Yoshihiro Yamanishi, Masaaki Kotera. Simultaneous prediction of enzyme orthologs from chemical transformation patterns for de novo metabolic pathway reconstruction., Oxford Journals, Vol. 32, No. 12, pp. i278-i287, June 2016.  公式リンク  
  
• Yuki Moriya, Takuji Yamada, Shujiro Okuda, Masaaki Kotera, Zenichi Nakagawa, Toshiaki Tokimatsu, Susumu Goto, Minoru Kanehisa. Identification of Enzyme Genes Using Chemical Structure Alignments of Substrate-Product Pairs, Journal of Chemical Information and Modeling, Vol. 56, No. 3, pp. 510-516, Feb. 2016.  公式リンク  
  
• Iwata Hiroaki, Sawada Ryusuke, Mizutani Sayaka, Kotera Masaaki, Yamanishi Yoshihiro. Large-Scale Prediction of Beneficial Drug Combinations Using Drug Efficacy and Target Profiles, Journal of Chemical Information and Modeling, Vol. 55, No. 12, pp. 2705-2716, Dec. 2015.  公式リンク  
  
• Yoshihiro Yamanishi, Yasuo Tabei, Masaaki Kotera. Metabolome-scale de novo pathway reconstruction using regioisomer-sensitive graph alignments, Bioinformatics, Vol. 31, No. 12, pp. i161-i170, June 2015.  公式リンク  
  
• Masaaki Kotera, Yosuke Nishimura, Zen-ichi Nakagawa, Ai Muto, Yuki Moriya, Shinobu Okamoto, Shuichi Kawashima, Toshiaki Katayama, Toshiaki Tokimatsu, Minoru Kanehisa, Susumu Goto. PIERO ontology for analysis of biochemical transformations: Effective implementation of reaction information in the IUBMB Enzyme List, Nov. 2014.
• Masaaki Kotera, Yasuo Tabei, Yoshihiro Yamanishi, Ai Muto, Yuki Moriya, Toshiaki Tokimatsu, Susumu Goto. Metabolome-scale prediction of intermediate compounds in multistep metabolic pathways with a recursive supervised approach, Bioinformatics, Vol. 30, No. 12, pp. i165-174, June 2014.
• Zhao Jin, Masaaki Kotera, Susumu Goto. Virus proteins similar to human proteins as possible disturbance on human pathways., Syst Synth Biol, Vol. 8, No. 4, pp. 283–295, May 2014.

国際会議発表 (査読有り)

• Masaaki Kotera. Simultaneous prediction of enzyme orthologs from chemical transformation patterns for de novo metabolic pathway reconstruction., The 24rd Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2016), 2016.
• Masaaki Kotera. Metabolome-scale de novo pathway reconstruction using regioisomer-sensitive graph alignments, 23th Annual International Conference on Intelligent Systems for Molecular Biology, June 2015.
• Masaaki Kotera. PIERO ontology for analysis of biochemical transformations: Effective implementation of reaction information in the IUBMB Enzyme List, GIW / ISCB-Asia 2014, Nov. 2014.
• Masaaki Kotera. Metabolome-scale prediction of intermediate compounds in multistep metabolic pathways with a recursive supervised approach, The 22nd Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2014), June 2014.

その他の論文・著書など

• Masaaki Kotera, Susumu Goto. Metabolic pathway reconstruction strategies for central metabolism and natural product biosynthesis, Biophysics and Physicobiology, Vol. 13, 195-205, July 2016.  公式リンク  
  
• 小寺正明, 五斗進. 教師付き学習法によるメタボローム規模での多段階代謝経路予測, 生物物理, 日本生物物理学会, Vol. 55, No. 3, pp. 160-163, May 2015.
• Ryusuke Sawada, Masaaki Kotera, Yoshihiro Yamanishi. Benchmarking a wide range of chemical descriptors for drug-target interaction prediction using a chemogenomic approach., Molecular Informatics, Vol. 33, No. 11-12, pp. 719–731, Nov. 2014.

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