Author

Barbora Knappeová

Czech Academy of Sciences, Institute of Biophysics

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

Signature Assays, Organisms & Methods

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Approach:benchmark study· 1 Research Focus:benchmarking· 1 Assay:DNA methylation· 1 Approach:mechanistic / dynamical model· 1 Research Focus:protein structure prediction· 1 Assay:proteomics· 1 Approach:statistical model· 1

Frequent Co-Authors

Jiřı́ ŠponeriD· 2 shared Miroslav KrepliD· 2 shared Martin PykaliD· 1 shared Michal OtyepkaiD· 1 shared Pavel BanášiD· 1 shared Vojtěch MlýnskýiD· 1 shared

Activity by Year

2024-2025 · peak 1/yr

Co-Author Collaboration Network

6 top collaborators · 15 mutual co-author links

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2 shared papersBiophysics

Jiřı́ ŠponerORCID

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2 papers

Recent·Most cited

Sequence-Dependent Dynamics of U:U Mismatches in RNA Revealed by Molecular Dynamics Simulations

Miroslav Krepl, Barbora Knappeová, Jiřı́ Šponer

This study uses molecular dynamics simulations to show that U:U mismatches in RNA adopt multiple conformations influenced by neighboring base pairs and environmental factors.

bioRxiv · May 14, 2025 · PreprintBiophysics

Comprehensive Assessment of Force-Field Performance in Molecular Dynamics Simulations of DNA/RNA Hybrid Duplexes

Barbora Knappeová, Vojtěch Mlýnský, Martin Pykal, Jiřı́ Šponer, Pavel Banáš, Michal Otyepka, Miroslav Krepl

This study benchmarks force-field performance for DNA/RNA hybrid duplexes, finding no force field accurately reproduces all structural features and highlighting parameter conflicts.

Journal of Chemical Theory and Computation · Jul 16, 2024Peer-reviewedBiophysics