Bottaro, Sandro
Bottaro, Sandro
SCUOLA INTERNAZIONALE SUPERIORE DI STUDI AVANZATI DI TRIESTE
A nucleobase-centered coarse-grained representation for structure prediction of RNA motifs
2018-01-01 Poblete Fuentes, Simon David; Bottaro, Sandro; Bussi, Giovanni
Accurate multiple time step in biased molecular simulations
2015-01-01 Ferrarotti, M. J.; Bottaro, Sandro; Perez Villa, Andrea; Bussi, Giovanni
Automated Force-Field Parametrization Guided by Multisystem Ensemble Averages
2018-01-01 Cesari, Andrea; Bottaro, Sandro; Bussi, Giovanni
Barnaba: software for analysis of nucleic acid structures and trajectories
2019-01-01 Bottaro, Sandro; Bussi, Giovanni; Pinamonti, Giovanni; Reißer, Sabine; Boomsma, Wouter; Lindorff-Larsen, Kresten
Computer Folding of RNA Tetraloops: Identification of Key Force Field Deficiencies
2016-01-01 Kührová, P.; Best, R. B.; Bottaro, Sandro; Bussi, Giovanni; Šponer, J.; Otyepka, M.; Banáš, P.
Conformational ensembles of RNA oligonucleotides from integrating NMR and molecular simulations
2018-01-01 Bottaro, Sandro; Bussi, Giovanni; Kennedy, Scott D.; Turner, Douglas H.; Lindorff-Larsen, Kresten
Elastic network models for RNA: a comparative assessment with molecular dynamics and SHAPE experiments
2015-01-01 Pinamonti, G.; Bottaro, S.; Micheletti, C.; Bussi, G.
Empirical corrections to the Amber RNA force field with Target Metadynamics
2016-01-01 Gil Ley, Alejandro; Bottaro, Sandro; Bussi, Giovanni
Free Energy Landscape of GAGA and UUCG RNA Tetraloops
2016-01-01 Bottaro, Sandro; Banáš, P.; Šponer, J.; Bussi, Giovanni
Kissing loop interaction in adenine riboswitch: insights from umbrella sampling simulations
2015-01-01 Di Palma, F.; Bottaro, S.; Bussi, G.
RNA Conformational Ensembles: Narrowing the GAP between Experiments and Simulations with Metadynamics
2016-01-01 Gil Ley, Alejandro; Bottaro, Sandro; Bussi, Giovanni
RNA Conformational Fluctuations from Elastic Network Models: A Comparison with Molecular Dynamics and Shape Experiments
2016-01-01 Pinamonti, Giovanni; Bottaro, Sandro; Micheletti, Cristian; Bussi, Giovanni
RNA Folding Pathways in Stop Motion
2016-01-01 Bottaro, Sandro; Gil Ley, Alejandro; Bussi, Giovanni
RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview
2018-01-01 Šponer, Jiří; Bussi, Giovanni; Krepl, Miroslav; Banáš, Pavel; Bottaro, Sandro; Cunha, Richard A; Gil-Ley, Alejandro; Pinamonti, Giovanni; Poblete, Simón; Jurečka, Petr; Walter, Nils G; Otyepka, Michal
The Role of Nucleobase Interactions in RNA Structure and Dynamics
2014-01-01 Bottaro, Sandro; Di Palma, Francesco; Bussi, Giovanni