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Shoji Takada

Kyoto University
Kobe University

311

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5736

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Semi-Implicit Time Integration with Hessian Eigenvalue Corrections for a Larger Time Step in Molecular Dynamics Simulations.

2021 Journal of Chemical Theory and Computation
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Testing mechanisms of DNA sliding by architectural DNA-binding proteins: dynamics of single wild-type and mutant protein molecules in vitro and in vivo.

2021 Nucleic Acids Research
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Modeling DNA opening in the eukaryotic transcription initiation complexes

2021 bioRxiv
- Shino G
- Shoji Takada
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F0-F1 coupling and symmetry mismatch in ATP synthase resolved in every F0 rotation step

2021 bioRxiv
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The kinetic landscape of nucleosome assembly: A coarse-grained molecular dynamics study.

2021 PLOS Computational Biology
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Modeling of DNA binding to the condensin hinge domain using molecular dynamics simulations guided by atomic force microscopy.

2021 PLOS Computational Biology
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R&D on commercial high temperature gas-cooled reactor

2021
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Modeling DNA Opening in the Eukaryotic Transcription Initiation Complexes via Coarse-Grained Models

2021 Frontiers in Molecular Biosciences
- Genki Shino
- Shoji Takada
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Opening of cohesin's SMC ring is essential for timely DNA replication and DNA loop formation.

2021 Cell Reports
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Modeling lipid-protein interactions for coarse-grained lipid and Cα protein models

2021 Journal of Chemical Physics
- Diego Renato Ugarte La Torre
- Shoji Takada
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