Author

W. Shinoda

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 2 Cell Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 2 Research Focus:cell signaling & trafficking· 1 Research Focus:chromatin & epigenetic regulation· 1 Approach:mechanistic / dynamical model· 1 Research Focus:protein design· 1 Research Focus:protein folding & dynamics· 1 Research Focus:protein structure prediction· 1 Assay:proteomics· 1

Frequent Co-Authors

S. Vanni· 2 shared Y. Miyazaki· 2 shared A. Kumar· 1 shared C. MacDermaid· 1 shared G. Fiorin· 1 shared H. Liu· 1 shared M. Dixit· 1 shared M. L. Klein· 1 shared

Activity by Year

2020-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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2 shared papersBiophysics

S. Vanni

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

Improved Protein Model in SPICA Force Field

T. Yamada, Y. Miyazaki, S. Harada, A. Kumar, S. Vanni, W. Shinoda

This paper improves the SPICA force field to better simulate proteins, including IDPs and peripheral proteins, by introducing secondary structure-dependent nonbonded parameters and re-optimizing interactions.

bioRxiv · Sep 15, 2023Biophysics

The SPICA Coarse-Grained Force Field for Proteins and Peptides

S. Kawamoto, H. Liu, S. Seo, Y. Miyazaki, M. Dixit, R. DeVane, C. MacDermaid, G. Fiorin, M. L. Klein, W. Shinoda

The paper develops and improves a coarse-grained force field for proteins and peptides, showing good performance in simulating membrane protein behavior and interactions.

bioRxiv · Dec 1, 2021 · PreprintBiophysics

Seipin accumulates and traps diacylglycerols and triglycerides in its ring-like structure

V. Zoni, W. Shinoda, S. Vanni

This study uses molecular dynamics simulations to show that seipin clusters triglycerides and diacylglycerol in its ring-like structure, promoting lipid droplet formation by remodeling ER membranes.

bioRxiv · Oct 27, 2020Cell Biology