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Publication

2024


Explicit description of viral capsid subunit shapes by unfolding dihedrons

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.

2020


Publications

Papers #

  • Y. Matsunaga*, Y. Wu, Y. Zhang, S. Kumari, A. Enomoto, Y. Homma, S. Hatakeyama, and A. Shinobu “An auditable harness for biomolecular dynamics simulations by AI agents” bioRxiv (2026) DOI:10.64898/2026.11.09.765490

  • T. Murakami, K. Sasaki, S. Oda, K. Okada, and Y. Matsunaga* “Transfer learning from computed stability data for nanobody melting-temperature prediction” bioRxiv (2026) DOI:10.64898/2026.07.30.741744

  • 松永康佑*、石曽根毅、渕上壮太郎、中村和幸 “変分オートエンコーダによるタンパク質ダイナミクスの表現学習” アンサンブル 28巻4号(通巻116号), 137-144 (2026)