Author

T. Kameda

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· 3 Bioengineering· 2 Microbiology· 1

Signature Assays, Organisms & Methods

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Research Focus:chromatin & epigenetic regulation· 2 Approach:machine learning (classical)· 2 Research Focus:protein design· 2 Assay:protein sequence· 2 Research Focus:benchmarking· 1 Approach:biophysical modeling· 1 Assay:DNA methylation· 1 Approach:experimental assay· 1

Frequent Co-Authors

Y. Togashi· 3 shared A. Awazu· 2 shared H. Nakazawa· 2 shared K. Tsuda· 2 shared M. Oikawa· 2 shared M. Umetsu· 2 shared Y. Saito· 2 shared K. Asano· 1 shared

Activity by Year

2018-2021 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 13 mutual co-author links

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3 shared papersBiophysics

Y. Togashi

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Author profile →

6 papers

Recent·Most cited

Machine-learning-guided library design cycle for directed evolution of enzymes: the effects of training data composition on sequence space exploration

Y. Saito, M. Oikawa, T. Sato, H. Nakazawa, T. Ito, T. Kameda, K. Tsuda, M. Umetsu

This study shows that ML-guided directed evolution can lead to different enzyme variants depending on the presence of a highly positive variant in training data, achieving similar activity improvements.

bioRxiv · Aug 13, 2021Bioengineering

Free Energy Landscape of RNA Binding Dynamics in Start Codon Recognition by Eukaryotic Ribosomal Pre-Initiation Complex

T. Kameda, K. Asano, Y. Togashi

This paper uses simulation to evaluate free energy profiles of start codon recognition, showing how mismatches affect translation initiation.

bioRxiv · Feb 24, 2021Biophysics

Structural Dynamics of DNA Depending on Methylation Pattern

T. Kameda, M. M. Suzuki, A. Awazu, Y. Togashi

This study uses molecular dynamics simulations to investigate how DNA methylation patterns affect DNA structure and dynamics, revealing changes in local flexibility and overall geometry.

bioRxiv · Jun 29, 2020Biophysics

Histone Tail Dynamics in Partially Disassembled Nucleosomes During Chromatin Remodeling

T. Kameda, A. Awazu, Y. Togashi

This study uses molecular dynamics simulations to analyze the dynamics of partially disassembled nucleosomes, finding that DNA deformation is more pronounced in nucleosomes lacking H2A/H2B compared to those lacking H3/H4.

bioRxiv · May 9, 2019Biophysics

Antibacterial effects of nanoimprinted moth-eye film in practical settings

M. Yamada, K. Minoura, T. Mizoguchi, K. Nakamatsu, T. Taguchi, T. Kameda, M. Sekiguchi, T. Suzutani, S. Konno

This study verifies that a moth-eye film with nanoscale protrusions reduces bacterial counts compared to flat and PET films in practical settings.

bioRxiv · May 18, 2018Microbiology

A machine-learning-guided mutagenesis platform for accelerated discovery of novel functional proteins

Y. Saito, M. Oikawa, H. Nakazawa, T. Niide, T. Kameda, K. Tsuda, M. Umetsu

The paper introduces a machine-learning-guided mutagenesis platform that accelerates discovery of functional proteins by using two rounds of mutagenesis informed by a trained model.

bioRxiv · Mar 16, 2018Bioengineering