List of works - Sandro Bottaro

Accurate multiple time step in biased molecular simulations. ⬇️

scientific article published on 23 December 2014

An efficient null model for conformational fluctuations in proteins

scientific article published on 10 May 2012

Barnaba: software for analysis of nucleic acid structures and trajectories

scientific article published on 12 November 2018

Biophysical experiments and biomolecular simulations: A perfect match?

scientific article published on 01 July 2018

Computer Folding of RNA Tetraloops: Identification of Key Force Field Deficiencies.

scientific article published on 20 July 2016

Conformational ensembles of RNA oligonucleotides from integrating NMR and molecular simulations.

scientific article

Correction to Variational Optimization of an All-Atom Implicit Solvent Force Field To Match Explicit Solvent Simulation Data

scientific article

Effects and limitations of a nucleobase-driven backmapping procedure for nucleic acids using steered molecular dynamics

scientific article published on 14 December 2017

Elastic network models for RNA: a comparative assessment with molecular dynamics and SHAPE experiments. ⬇️

scientific article

Empirical Corrections to the Amber RNA Force Field with Target Metadynamics. ⬇️

scientific article published on 6 May 2016

Formulation of probabilistic models of protein structure in atomic detail using the reference ratio method.

scientific article

Free Energy Landscape of GAGA and UUCG RNA Tetraloops ⬇️

scientific article published on 23 September 2016

Generative probabilistic models extend the scope of inferential structure determination

scientific article

Kissing loop interaction in adenine riboswitch: insights from umbrella sampling simulations ⬇️

scientific article published on June 2015

Mapping the Universe of RNA Tetraloop Folds.

scientific article published on 30 June 2017

PHAISTOS: a framework for Markov chain Monte Carlo simulation and inference of protein structure

scientific article

Potentials of mean force for protein structure prediction vindicated, formalized and generalized

scientific article

RNA folding pathways in stop motion ⬇️

scientific article

Structure and dynamics of a nanodisc by integrating NMR, SAXS and SANS experiments with molecular dynamics simulations

scientific article published on 30 July 2020

Subtle Monte Carlo Updates in Dense Molecular Systems

scientific article published on 18 January 2012

The role of nucleobase interactions in RNA structure and dynamics. ⬇️

scientific article published on 29 October 2014

Variational Optimization of an All-Atom Implicit Solvent Force Field to Match Explicit Solvent Simulation Data

scientific article

List of works by Sandro Bottaro

Accurate multiple time step in biased molecular simulations. ⬇️

An efficient null model for conformational fluctuations in proteins

Barnaba: software for analysis of nucleic acid structures and trajectories

Biophysical experiments and biomolecular simulations: A perfect match?

Computer Folding of RNA Tetraloops: Identification of Key Force Field Deficiencies.

Conformational ensembles of RNA oligonucleotides from integrating NMR and molecular simulations.

Correction to Variational Optimization of an All-Atom Implicit Solvent Force Field To Match Explicit Solvent Simulation Data

Effects and limitations of a nucleobase-driven backmapping procedure for nucleic acids using steered molecular dynamics

Elastic network models for RNA: a comparative assessment with molecular dynamics and SHAPE experiments. ⬇️

Empirical Corrections to the Amber RNA Force Field with Target Metadynamics. ⬇️

Formulation of probabilistic models of protein structure in atomic detail using the reference ratio method.

Free Energy Landscape of GAGA and UUCG RNA Tetraloops ⬇️

Generative probabilistic models extend the scope of inferential structure determination

Kissing loop interaction in adenine riboswitch: insights from umbrella sampling simulations ⬇️

Mapping the Universe of RNA Tetraloop Folds.

PHAISTOS: a framework for Markov chain Monte Carlo simulation and inference of protein structure

Potentials of mean force for protein structure prediction vindicated, formalized and generalized

RNA folding pathways in stop motion ⬇️

Structure and dynamics of a nanodisc by integrating NMR, SAXS and SANS experiments with molecular dynamics simulations

Subtle Monte Carlo Updates in Dense Molecular Systems

The role of nucleobase interactions in RNA structure and dynamics. ⬇️

Variational Optimization of an All-Atom Implicit Solvent Force Field to Match Explicit Solvent Simulation Data