Author

Rina Hashimoto

Kyoto UniversityORCID 0000-0002-7174-4563Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Research Focus:host-pathogen & immune response· 3 Organism:human· 3 Assay:bulk RNA-seq· 1 Approach:deep learning· 1 Research Focus:drug response / drug discovery· 1 Assay:proteomics· 1 Assay:scRNA-seq· 1

Frequent Co-Authors

Kazuo TakayamaiD· 4 shared Jingshu LiiD· 3 shared Jumpei ItoiD· 3 shared Kei SatoiD· 3 shared Keita MatsunoiD· 3 shared Masumi TsudaiD· 3 shared Naganori Nao· 3 shared Rigel SuzukiiD· 3 shared

Activity by Year

2025-2025 · peak 4/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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Curved chords = mutual co-authorship

4 shared papersMicrobiology

Kazuo TakayamaORCID

Mutual co-authors in cluster

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4 papers

Recent·Most cited

A non-spike nucleocapsid R204P mutation in SARS-CoV-2 Omicron XEC enhances inflammation and pathogenicity

Shuhei Tsujino, Masumi Tsuda, Sayaka Deguchi, Jumpei Ito, Taha Y. Taha, Hesham Nasser, Lei Wang, Julia Rosecrans, Rigel Suzuki, Saori Suzuki, Kumiko Yoshimatsu, Mélanie Ott, Terumasa Ikeda, Kei Sato, Kazuo Takayama, , Miki Kawano

This study identifies the non-spike R204P mutation in the SARS-CoV-2 Omicron XEC variant as a driver of increased inflammation and pathogenicity through NF-κB activation.

Nature Communications · Dec 14, 2025Peer-reviewedMicrobiology

A cattle-derived human H5N1 isolate suppresses innate immunity despite efficient replication in human respiratory organoids

Shintaro Shichinohe, Hikaru Sugimoto, Masako Yamasaki, Rina Hashimoto, Tatsuru Morita, Daiki Kobayashi, Takahiro Hiono, Daisuke Motooka, Makoto Shimooka, Norikazu Isoda, Mai thi Quynh Le, Ayato Takada, Yoshihiro Sakoda, Eiryo Kawakami, Kazuo Takayama, Tokiko Watanabe

This study uses human respiratory organoids to show that a cattle-derived H5N1 isolate replicates efficiently but suppresses innate immune responses, explaining its mild clinical presentation in humans.

bioRxiv · Nov 2, 2025 · PreprintMicrobiology

A Protein Language Model for Exploring Viral Fitness Landscapes

Jumpei Ito, Adam Patrick Strange, Wei Liu, Gustav Joas, Spyros Lytras, Keita Matsuno, Naganori Nao, Hirofumi Sawa, Keita Mizuma, Isshu Kojima, Jingshu Li, Tomoya Tsubo, Shinya Tanaka, Masumi Tsuda, Lei Wang, , Kei Sato

This paper introduces CoVFit, a protein language model that predicts SARS-CoV-2 variant fitness using spike protein sequences, identifying fitness-enhancing mutations and predicting emerging variants.

Nature Communications · May 13, 2025Peer-reviewedMicrobiology

Evolution of BA.2.86 to JN.1 reveals functional changes in non-structural viral proteins are required for fitness of SARS-CoV-2

Shuhei Tsujino, Masumi Tsuda, Naganori Nao, Kaho Okumura, Lei Wang, Yoshitaka Oda, Yume Mimura, Jingshu Li, Rina Hashimoto, Yasufumi Matsumura, Rigel Suzuki, Saori Suzuki, Kumiko Yoshimatsu, Miki Nagao, Jumpei Ito, , Takasuke Fukuhara

This study investigates the evolutionary changes from BA.2.86 to JN.1, showing that non-spike protein mutations compensate for reduced spike protein replication, enhancing viral fitness.

bioRxiv · Feb 17, 2025 · PreprintMicrobiology