T. Murakami, Y. Hashidate, and Y. Matsunaga published a new preprint on bioRxiv.
Read the full paper: Mechanistic Interpretability of Fine-Tuned Protein Language Models for Nanobody Thermostability Prediction
T. Kawai, and Y. Matsunaga published a new preprint on bioRxiv.
Read the full paper: AFM-Fold: Rapid Reconstruction of Protein Conformations from AFM Images
Prof. Matsunaga gave an invited talk titled “AFM data tip shape estimation and its application to biomolecular dynamics modeling” at the Japanese Society of Microscopy SPM Workshop 2024 held at Hokkaido University Enreiso on January 9, 2025.
Our collaborative paper with Dr. Tachi (University of Tokyo), Toyooka-san, Nishimoto-san, Tendo-san, and Dr. Horiyama (Hokkaido University) on viral capsid structure tiling has been published in Communications Biology.
Virus capsid structures are formed by proteins of the same shape assembling into icosahedra, but the possible tile shapes were not well understood. Through this collaboration with the Tachi group and Dr. Horiyama, who are experts in tiling, we developed a framework to explicitly describe capsid tile shapes and applied it to classify actual viral capsid structures.