164 citations
- Scuola Internazionale Superiore di Studi AvanzatiIT5 papers
- Czech Academy of SciencesCZ4 papers
- Centre National de la Recherche ScientifiqueFR3 papers
- Palacký University OlomoucCZ3 papers
- Regional Centre of Advanced Technologies and MaterialsCZ3 papers
- Heidelberg UniversityDE2 papers
- InsermFR2 papers
- Lyon 1 UniversitéFR2 papers
- Technical University of MunichDE2 papers
- University of GroningenNL2 papers
- University of PotsdamDE2 papers
- Acides nucléiques: Régulations naturelles et artificiellesFR1 paper
11 papers
Molecular simulations to investigate the impact of N6-methylation in RNA recognition: Improving accuracy and precision of binding free energy prediction
Valerio Piomponi, Miroslav Krepl, Jiri Sponer +1
N6-methyladenosine (m6A) is a prevalent RNA post-transcriptional modification that plays crucial roles in RNA stability, structural dynamics, and interactions with proteins. The YT…
RNA Dynamics from Experimental and Computational Approaches
Giovanni Bussi, Massimiliano Bonomi, Paraskevi Gkeka +16
Ribonucleic acids (RNA) are unique in that they can store genetic information, replicate and perform catalysis. Importantly, RNA molecules are highly dynamic, and thus determining…
Condensed Matter Systems Exposed to Radiation: Multiscale Theory, Simulations, and Experiment
Andrey V. Solov'yov, Alexey V. Verkhovtsev, Nigel J. Mason +20
This paper reviews the new highly interdisciplinary research field studying the behavior of condensed matter systems exposed to radiation. The paper highlights several relevant exa…
Foundational Competencies and Responsibilities of a Research Software Engineer: Current State and Suggestions for Future Directions
Florian Goth, Renato Alves, Matthias Braun +20
The term Research Software Engineer, or RSE, emerged a little over 10 years ago as a way to represent individuals working in the research community but focusing on software develop…
Do conformational changes contribute to the surface plasmon resonance signal?
Daniel Dobrovodský, Carmelo Di Primo
Surface plasmon resonance (SPR)-based biosensors are widely used instruments for characterizing molecular interactions. In theory the SPR signal depends only on mass changes for in…
Automatic learning of hydrogen-bond fixes in an AMBER RNA force field
Thorben Fröhlking, Vojtěch Mlýnský, Michal Janeček +5
The capability of current force fields to reproduce RNA structural dynamics is limited. Several methods have been developed to take advantage of experimental data in order to enfor…