Yuichi Togashi

Department of Basic Science|School of Arts and Sciences|University of Tokyo

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Papers58 papers

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Structural Dynamics of DNA Depending on Methylation Patterns

Takeru Kameda, Miho M. Suzuki,Akinori Awazu,Yuichi Togashi

Physical review. E, no. 1-1 (2021): 012404-7

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PHi-C: deciphering Hi-C data into polymer dynamics

S. Shinkai, M. Nakagawa, T. Sugawara,Y. Togashi, H. Ochiai,R. Nakato, Y. Taniguchi, S. Onami

NAR genomics and bioinformatics, no. 2 (2020): 1-19

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Molecular Dynamics Analysis of Partially Disassembled Nucleosomes

Takeru Kameda,Akinori Awazu,Yuichi Togashi

Seibutsu Butsuri, no. 5 (2020): 288-290

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Modeling of Nanomachine/Micromachine Crowds: Interplay between the Internal State and Surroundings

Yuichi Togashi,Yuichi Togashi

JOURNAL OF PHYSICAL CHEMISTRY B, no. 7 (2019): 1481-1490

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Histone Tail Dynamics in Partially Disassembled Nucleosomes During Chromatin Remodeling

Takeru Kameda,Akinori Awazu,Yuichi Togashi

FRONTIERS IN MOLECULAR BIOSCIENCES, (2019): 133-10

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Analyzing Fluctuation Properties in Protein Elastic Networks with Sequence-Specific and Distance-Dependent Interactions

Romain Amyot,Yuichi Togashi, Holger Flechsig

BIOMOLECULES, no. 10 (2019)

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Coarse-Grained Protein Dynamics Studies Using Elastic Network Models

Yuichi Togashi, Holger Flechsig

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, no. 12 (2018): 3899

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Single-molecule diffusion-based estimation of ligand effects on G protein-coupled receptors

Masataka Yanagawa,Michio Hiroshima,Yuichi Togashi,Mitsuhiro Abe,Takahiro Yamashita,Yoshinori Shichida,Masayuki Murata,Masahiro Ueda,Yasushi Sako

SCIENCE SIGNALING, no. 548 (2018)

Cited by1WOSBibtex

Designed Elastic Networks: Models of Complex Protein Machinery

Holger Flechsig,Yuichi Togashi

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, no. 10 (2018): 3152

Cited by1Bibtex

A Reply to “A Letter to Editors—A Proposal for SEIBUTSU BUTSURI—”

Yasushi Sako,Shuji Akiyama,Yuichi Togashi

Seibutsu Butsuri, no. 2 (2018): 110-111

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The 1-Particle-per-k-Nucleotides (1PkN) Elastic Network Model of DNA Dynamics with Sequence-Dependent Geometry

Takeru Kameda, Shuhei Isami,Yuichi Togashi,Hiraku Nishimori,Naoaki Sakamoto,Akinori Awazu

FRONTIERS IN PHYSIOLOGY, (2017): 103

Cited by1WOSBibtex

An Active Chain Model to Consider the Crosstalk between the Structure and Function of Chromatin: Effects of Heterogeneity

Yuichi Togashi

Biophysical Journal, no. 3 (2017): 3-4

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Varying the Resolution of the Rouse Model on Temporal and Spatial Scales: Application to Multiscale Modeling of DNA Dynamics

Edward Rolls,Yuichi Togashi,Radek Erban

MULTISCALE MODELING & SIMULATION, no. 4 (2017): 1672-1693

Cited by2EIBibtex

Single-molecule diffusion-based estimation of GPCR activity

Masataka Yanagawa,Michio Hiroshima,Yuichi Togashi,Takahiro Yamashita, Yoshinori Shichida,Masayuki Murata, Masahiro Ueda,Yasushi Sako

bioRxiv, pp.205161-46, (2017)

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Bridging the dynamics and organization of chromatin domains by mathematical modeling

Soya Shinkai,Tadasu Nozaki,Kazuhiro Maeshima,Yuichi Togashi

NUCLEUS-INDIA, no. 4.0 (2017): 353.0-359.0

Cited by2WOSBibtex

Non-RVD mutations that enhance the dynamics of the TAL repeat array along the superhelical axis improve TALEN genome editing efficacy

Naoya Tochio, Kohei Umehara,Jun-ichi Uewaki, Holger Flechsig,Masaharu Kondo, Takehisa Dewa,Tetsushi Sakuma,Takashi Yamamoto, Takashi Saitoh,Yuichi Togashi,Shin-ichi Tate

Scientific Reports, (2016)

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Screening for mechanical responses of proteins using coarse-grained elastic network models

Yuichi Togashi,Yuichi Togashi

Nonlinear Theory and Its Applications, IEICE, no. 2 (2016): 190-201

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Structural information of CDs provided by single-nucleosome dynamics

Shinkai Soya,Nozaki Tadasu,Maeshima Kazuhiro,Togashi Yuichi

PLOS Computational Biology, (2016)

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Single-nucleosome imaging and analysis

Shinkai Soya,Nozaki Tadasu,Maeshima Kazuhiro,Togashi Yuichi

PLOS Computational Biology, (2016)

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Schematic illustration of our polymer model for CDs

Shinkai Soya,Nozaki Tadasu,Maeshima Kazuhiro,Togashi Yuichi

PLOS Computational Biology, (2016)

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Papers58 papers

Yuichi Togashi