End-to-end differentiable blind tip reconstruction for noisy atomic force microscopy images
Matsunaga, Yasuhiro, Fuchigami, Sotaro, Ogane, Tomonori, Takada, Shoji
Published in Scientific reports (04.01.2023)
Published in Scientific reports (04.01.2023)
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Journal Article
Rigid-body fitting to atomic force microscopy images for inferring probe shape and biomolecular structure
Niina, Toru, Matsunaga, Yasuhiro, Takada, Shoji
Published in PLoS computational biology (01.07.2021)
Published in PLoS computational biology (01.07.2021)
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Journal Article
Development of hidden Markov modeling method for molecular orientations and structure estimation from high-speed atomic force microscopy time-series images
Ogane, Tomonori, Noshiro, Daisuke, Ando, Toshio, Yamashita, Atsuko, Sugita, Yuji, Matsunaga, Yasuhiro
Published in PLoS computational biology (01.12.2022)
Published in PLoS computational biology (01.12.2022)
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Journal Article
Use of multistate Bennett acceptance ratio method for free-energy calculations from enhanced sampling and free-energy perturbation
Matsunaga, Yasuhiro, Kamiya, Motoshi, Oshima, Hiraku, Jung, Jaewoon, Ito, Shingo, Sugita, Yuji
Published in Biophysical reviews (01.12.2022)
Published in Biophysical reviews (01.12.2022)
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Journal Article
Minimum free energy path of ligand-induced transition in adenylate kinase
Matsunaga, Yasuhiro, Fujisaki, Hiroshi, Terada, Tohru, Furuta, Tadaomi, Moritsugu, Kei, Kidera, Akinori
Published in PLoS computational biology (01.06.2012)
Published in PLoS computational biology (01.06.2012)
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Journal Article
Energetics and conformational pathways of functional rotation in the multidrug transporter AcrB
Matsunaga, Yasuhiro, Yamane, Tsutomu, Terada, Tohru, Moritsugu, Kei, Fujisaki, Hiroshi, Murakami, Satoshi, Ikeguchi, Mitsunori, Kidera, Akinori
Published in eLife (06.03.2018)
Published in eLife (06.03.2018)
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Journal Article
Exploring Configuration Space and Path Space of Biomolecules Using Enhanced Sampling Techniques-Searching for Mechanism and Kinetics of Biomolecular Functions
Fujisaki, Hiroshi, Moritsugu, Kei, Matsunaga, Yasuhiro
Published in International journal of molecular sciences (15.10.2018)
Published in International journal of molecular sciences (15.10.2018)
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Journal Article
Dimensionality of Collective Variables for Describing Conformational Changes of a Multi-Domain Protein
Matsunaga, Yasuhiro, Komuro, Yasuaki, Kobayashi, Chigusa, Jung, Jaewoon, Mori, Takaharu, Sugita, Yuji
Published in The journal of physical chemistry letters (21.04.2016)
Published in The journal of physical chemistry letters (21.04.2016)
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Journal Article
Sequential data assimilation for single-molecule FRET photon-counting data
Matsunaga, Yasuhiro, Kidera, Akinori, Sugita, Yuji
Published in The Journal of chemical physics (07.06.2015)
Published in The Journal of chemical physics (07.06.2015)
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Journal Article
Building a macro-mixing dual‑basin Gō model using the Multistate Bennett Acceptance Ratio
Shinobu, Ai, Kobayashi, Chigusa, Matsunaga, Yasuhiro, Sugita, Yuji
Published in Biophysics and Physicobiology (01.01.2019)
Published in Biophysics and Physicobiology (01.01.2019)
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Journal Article
Tumor invasion to the arteries feeding the gallbladder as a novel risk factor for cholecystitis after metallic stent placement in distal malignant biliary obstruction
Sogabe, Yuko, Kodama, Yuzo, Honjo, Hajime, Aoyama, Ikuo, Muramoto, Yuya, Koga, Eri, Yanaidani, Takafumi, Kawai, Munenori, Yoshikawa, Teppei, Matsumoto, Shimpei, Matsumoto, Astushi, Mori, Yoshiharu, Ono, Chikage, Nishida, Miyu, Nishida, Yoshihiro, Mikami, Takao, Matsunaga, Yasuhiro, Miyamoto, Yukiko, Kitami, Motoya, Nishikawa, Koji, Kondo, Masahiko, Miyake, Naoki, Kawanami, Chiharu, Seno, Hiroshi
Published in Digestive endoscopy (01.05.2018)
Published in Digestive endoscopy (01.05.2018)
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Journal Article
Construction of a Humanized Artificial VHH Library Reproducing Structural Features of Camelid VHHs for Therapeutics
Murakami, Taihei, Kumachi, Shigefumi, Matsunaga, Yasuhiro, Sato, Miwa, Wakabayashi-Nakao, Kanako, Masaki, Hidekazu, Yonehara, Ryo, Motohashi, Maiko, Nemoto, Naoto, Tsuchiya, Masayuki
Published in Antibodies (Basel) (30.01.2022)
Published in Antibodies (Basel) (30.01.2022)
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Journal Article