Shigeyuki Matsumoto

11 papers Journal 11

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	Chemical genomics language model toward reliable and explainable compound-protein interaction exploration. J. Cheminformatics Takuto Koyama, Hayato Tsumura, Ryunosuke Okita, Kimihiro Yamazaki, Aki Hasegawa, Keiko Imamura, Takashi Kato, Hiroaki Iwata, Ryosuke Kojima, Haruhisa Inoue, Shigeyuki Matsumoto, Yasushi Okuno
2026	J	`jnl`	Elucidating Ligand Charge Effects in MR1 Cell-Surface Translocation Using Molecular Simulations. J. Chem. Inf. Model. Toshiki Fujii, Mitsugu Araki, Shigeyuki Matsumoto, Biao Ma, Takao Otsuka, Gert-Jan Bekker, Narutoshi Kamiya, Hiroaki Ohno, Shinsuke Inuki, Yasushi Okuno
2026	J	`jnl`	Empowering federated learning for robust compound-protein interaction prediction across heterogeneous cross-pharma domains. J. Cheminformatics Takuto Koyama, Hiroaki Iwata, Ryosuke Kojima, Takao Otsuka, Aki Hasegawa, Seungeon Lee, Hiroshi Ueda, Toshiharu Morimoto, Ryoko Sasaki, Nao Torimoto, Sei Murakami, Manabu Tojo, Teruki Honma, Shigeyuki Matsumoto, Yasushi Okuno
2025	J	`jnl`	HELM-BERT: A Transformer for Medium-sized Peptide Property Prediction. CoRR Seungeon Lee, Takuto Koyama, Itsuki Maeda, Shigeyuki Matsumoto, Yasushi Okuno
2025	J	`jnl`	Improving ADME Prediction with Multitask Graph Neural Networks and Assessing Explainability in Lead Optimization. J. Chem. Inf. Model. Shoma Ito, Takuto Koyama, Shigeyuki Matsumoto, Ryosuke Kojima, Yuji Okamoto, Masataka Kuroda, Hitoshi Kawashima, Reiko Watanabe, Tomoki Yonezawa, Takaaki Sumiyoshi, Kazuyoshi Ikeda, Kenji Mizuguchi, Hiroaki Iwata, Yasushi Okuno
2025	J	`jnl`	kMoL: an open-source machine and federated learning library for drug discovery. J. Cheminformatics Romeo Cozac, Haris Hasic, Jun Jin Choong, Vincent Richard, Loic Beheshti, Cyrille Froehlich, Takuto Koyama, Shigeyuki Matsumoto, Ryosuke Kojima, Hiroaki Iwata, Aki Hasegawa, Takao Otsuka, Yasushi Okuno
2023	J	`jnl`	Improving Compound-Protein Interaction Prediction by Self-Training with Augmenting Negative Samples. J. Chem. Inf. Model. Takuto Koyama, Shigeyuki Matsumoto, Hiroaki Iwata, Ryosuke Kojima, Yasushi Okuno
2023	J	`jnl`	VGAE-MCTS: A New Molecular Generative Model Combining the Variational Graph Auto-Encoder and Monte Carlo Tree Search. J. Chem. Inf. Model. Hiroaki Iwata, Taichi Nakai, Takuto Koyama, Shigeyuki Matsumoto, Ryosuke Kojima, Yasushi Okuno
2021	J	`jnl`	Extraction of protein dynamics information from cryo-EM maps using deep learning. Nat. Mach. Intell. Shigeyuki Matsumoto, Shoichi Ishida, Mitsugu Araki, Takayuki Kato, Kei Terayama, Yasushi Okuno
2021	J	`jnl`	Structure-Based de Novo Molecular Generator Combined with Artificial Intelligence and Docking Simulations. J. Chem. Inf. Model. Biao Ma, Kei Terayama, Shigeyuki Matsumoto, Yuta Isaka, Yoko Sasakura, Hiroaki Iwata, Mitsugu Araki, Yasushi Okuno
2004	J	`jnl`	A 3.9-μm pixel pitch VGA format 10-b digital output CMOS image sensor with 1.5 transistor/pixel. IEEE J. Solid State Circuits Hidekazu Takahashi, Masakuni Kinoshita, Kazumichi Morita, Takahiro Shirai, Toshiaki Sato, Takayuki Kimura, Hiroshi Yuzurihara, Shunsuke Inoue, Shigeyuki Matsumoto