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Journal of Chemical Information and Modeling|September 3, 2025
Evolutionary Constraints Guide AlphaFold2 in Predicting Alternative Conformations and Inform Rational Mutation DesignValerio Piomponi, Alberto Cazzaniga, Francesca Cuturello
Bioinformatics (Oxford, England)|July 16, 2024
Enhancing predictions of protein stability changes induced by single mutations using MSA-based Language ModelsFrancesca Cuturello, Marco Celoria, Alessio Ansuini, et al.
RNA (New York, N.Y.)|March 3, 2020
Assessing the accuracy of direct-coupling analysis for RNA contact predictionFrancesca Cuturello, Guido Tiana, Giovanni Bussi
The Journal of Physical Chemistry. B|September 6, 2024
Molecular Simulations to Investigate the Impact of N6-Methylation in RNA Recognition: Improving Accuracy and Precision of Binding Free Energy PredictionValerio Piomponi, Miroslav Krepl, Jiri Sponer, et al.
ACS Central Science|August 29, 2022
Molecular Simulations Matching Denaturation Experiments for N<sup>6</sup>-MethyladenosineValerio Piomponi, Thorben Fröhlking, Mattia Bernetti, et al.
The Journal of Chemical Physics|May 15, 2025
MDRefine: A Python package for refining molecular dynamics trajectories with experimental dataIvan Gilardoni, Valerio Piomponi, Thorben Fröhlking, et al.
Journal of Chemical Theory and Computation|February 28, 2023
Alchemical Metadynamics: Adding Alchemical Variables to Metadynamics to Enhance Sampling in Free Energy CalculationsWei-Tse Hsu, Valerio Piomponi, Pascal T Merz, et al.
NAR Genomics and Bioinformatics|February 12, 2021
Machine learning a model for RNA structure predictionNicola Calonaci, Alisha Jones, Francesca Cuturello, et al.
Nucleic Acids Research|June 26, 2025
Unique conformational dynamics and protein recognition of A-to-I hyper-edited dsRNAChristoph Müller-Hermes, Valerio Piomponi, Stefan Hilber, et al.
Archivio Italiano Di Urologia, Andrologia : Organo Ufficiale [Di] Societa Italiana Di Ecografia Urologica E Nefrologica|February 24, 2011
New perineal tensive transobturator tape (T-TOT) for postprostatectomy urinary incontinenceAndrea Ceresoli, Andrea Guarneri, Davide Abed El Rahman, et al.
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