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Computational and Structural Biotechnology Journal|November 19, 2025
SpatialPPIv2: Enhancing protein-protein interaction prediction through graph neural networks with protein language modelsWenxing Hu, Masahito OhueComputational and Structural Biotechnology Journal|March 28, 2024
SpatialPPI: Three-dimensional space protein-protein interaction prediction with AlphaFold MultimerWenxing Hu, Masahito OhueBMC Research Notes|September 22, 2023
MEGADOCK-on-Colab: an easy-to-use protein-protein docking tool on Google ColaboratoryMasahito OhueBiophysics and Physicobiology|September 3, 2025
Protein-ligand affinity prediction via Jensen-Shannon divergence of molecular dynamics simulation trajectoriesKodai Igarashi, Masahito OhueBiomedicines|July 27, 2022
Solubility-Aware Protein Binding Peptide Design Using AlphaFoldTakatsugu Kosugi, Masahito OhueJournal of Chemical Information and Modeling|October 22, 2025
ALLM-Ab: Active Learning-Driven Antibody Optimization Using Fine-Tuned Protein Language ModelsKairi Furui, Masahito OhueInternational Journal of Molecular Sciences|October 23, 2021
Quantitative Estimate Index for Early-Stage Screening of Compounds Targeting Protein-Protein InteractionsTakatsugu Kosugi, Masahito OhueInternational Journal of Molecular Sciences|September 9, 2023
Design of Cyclic Peptides Targeting Protein-Protein Interactions Using AlphaFoldTakatsugu Kosugi, Masahito OhueCommunications Chemistry|April 5, 2024
Enhancing property and activity prediction and interpretation using multiple molecular graph representations with MMGXApakorn Kengkanna, Masahito OhueACS Omega|March 31, 2025
Benchmarking HelixFold3-Predicted Holo Structures for Relative Free Energy Perturbation CalculationsKairi Furui, Masahito OhuePageof 10