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G

Giovanni Bussi

sissa

46H-index
179Paper Count
3.6WCitation Count
Published Papers 86
Publication Date
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Making PLUMED Fly: A Tutorial on Optimizing Performance
errThe Journal of Physical Chemistry B
IF2.9
err2026-02-24
err0
errOAAI
errDaniele Rapetti; Massimiliano Bonomi; Carlo Camilloni; Giovanni Bussi; Gareth A. Tribello
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Blind Prediction of Complex Water and Ion Ensembles Around RNA in CASP16
errProteins: Structure, Function, and Bioinformatics
IF0
err2025-11-08
err0
PREAI
errRachael C. Kretsch; Elisa Posani; Eugene F. Baulin; Janusz M. Bujnicki; Giovanni Bussi; Thomas E. Cheatham III; Shi-Jie Chen; Arne Elofsson; Masoud Amiri Farsani; Olivia N. Fisher; M. Michael Gromiha; Ayush Gupta; Michiaki Hamada; K. Harini; Gang Hu; David Huang; Junichi Iwakiri; Anika Jain; Yuki Kagaya; Daisuke Kihara; Sebastian Kmiecik; Sowmya Ramaswamy Krishnan; Ikuo Kurisaki; Olivier Languin-Cattoën; Jun Li; Shanshan Li; Karim Malekzadeh; Tsukasa Nakamura; Wentao Ni; Chandran Nithin; Michael Z. Palo; Joon Hong Park; Smita P. Pilla; Simón Poblete; Fabrizio Pucci; Pranav Punuru; Anouka Saha; Kengo Sato; Ambuj Srivastava; Genki Terashi; Emilia Tugolukova; Jacob Verburgt; Qiqige Wuyun; Gül H. Zerze; Kaiming Zhang; Sicheng Zhang; Wei Zheng; Yuanzhe Zhou; Wah Chiu; David A. Case; Rhiju Das
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Unique conformational dynamics and protein recognition of A-to-I hyper-edited dsRNA
errNUCLEIC ACIDS RESEARCH
IF13.1
err2025-07-08
err0
errOAAI
errMueller-Hermes, Christoph; Piomponi, Valerio; Hilber, Stefan; Asami, Sam; Kreutz, Christoph; Bussi, Giovanni; Sattler, Michael
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Ensemble refinement of mismodeled cryo-EM RNA structures using all-atom simulations
errNATURE COMMUNICATIONS
IF15.7
err2025-05-16
err0
errOAAI
errPosani, Elisa; Janos, Pavel; Haack, Daniel; Toor, Navtej; Bonomi, Massimiliano; Magistrato, Alessandra; Bussi, Giovanni
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errSave
Exploring RNA destabilization mechanisms in biomolecular condensates through atomistic simulations
errPROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
IF9.1
err2025-04-09
err0
errOAAI
errBoccalini, Matteo; Berezovska, Yelyzaveta; Bussi, Giovanni; Paloni, Matteo; Barducci, Alessandro
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PLUMED Tutorials: A collaborative, community-driven learning ecosystem
errJOURNAL OF CHEMICAL PHYSICS
IF3.1
err2025-03-07
err1
PREAI
errTribello, Gareth A.; Bonomi, Massimiliano; Bussi, Giovanni; Camilloni, Carlo; Armstrong, Blake I.; Arsiccio, Andrea; Aureli, Simone; Ballabio, Federico; Bernetti, Mattia; Bonati, Luigi; Brookes, Samuel G. H.; Brotzakis, Z. Faidon; Capelli, Riccardo; Ceriotti, Michele; Chan, Kam-Tung; Cossio, Pilar; Dasetty, Siva; Donadio, Davide; Ensing, Bernd; Ferguson, Andrew L.; Fraux, Guillaume; Gale, Julian D.; Gervasio, Francesco Luigi; Giorgino, Toni; Herringer, Nicholas S. M.; Hocky, Glen M.; Hoff, Samuel E.; Invernizzi, Michele; Languin-Cattoen, Olivier; Leone, Vanessa; Limongelli, Vittorio; Lopez-Acevedo, Olga; Marinelli, Fabrizio; Febrer Martinez, Pedro; Masetti, Matteo; Mehdi, Shams; Michaelides, Angelos; Murtada, Mhd Hussein; Parrinello, Michele; Piaggi, Pablo M.; Pietropaolo, Adriana; Pietrucci, Fabio; Pipolo, Silvio; Pritchard, Claire; Raiteri, Paolo; Raniolo, Stefano; Rapetti, Daniele; Rizzi, Valerio; Rydzewski, Jakub; Salvalaglio, Matteo; Schran, Christoph; Seal, Aniruddha; Shayesteh Zadeh, Armin; Silva, Tomas F. D.; Spiwok, Vojtech; Stirnemann, Guillaume; Sucerquia, Daniel; Tiwary, Pratyush; Valsson, Omar; Vendruscolo, Michele; Voth, Gregory A.; White, Andrew D.; Wu, Jiangbo
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Computer Folding of Parallel DNA G-Quadruplex: Hitchhiker's Guide to the Conformational Space
errJOURNAL OF COMPUTATIONAL CHEMISTRY
IF4.8
err2024-12-09
err0
PREAI
errJanecek, Michal; Kuhrova, Petra; Mlynsky, Vojtech; Stadlbauer, Petr; Otyepka, Michal; Bussi, Giovanni; Sponer, Jiri; Banas, Pavel
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Sampling globally and locally correct RNA 3D structures using Ernwin, SPQR and experimental SAXS data
errNUCLEIC ACIDS RESEARCH
IF13.1
err2024-07-18
err1
errOAAI
errThiel, Bernhard C.; Bussi, Giovanni; Poblete, Simon; Hofacker, Ivo L.
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errSave
Molecular dynamics simulations reveal the parallel stranded d (GGGA)3GGG DNA quadruplex folds via multiple paths from a coil-like ensemble
errINTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
IF8.5
err2024-03-01
err2
errOAAI
errPokorna, Pavlina; Mlynsky, Vojtech; Bussi, Giovanni; Sponer, Jiri; Stadlbauer, Petr
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errSave
Molecular Dynamics Simulations with Grand-Canonical Reweighting Suggest Cooperativity Effects in RNA Structure Probing Experiments
errJOURNAL OF CHEMICAL THEORY AND COMPUTATION
IF5.5
err2023-06-08
err1
errOAAI
errCalonaci, Nicola; Bernetti, Mattia; Jones, Alisha; Sattler, Michael; Bussi, Giovanni
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Simultaneous refinement of molecular dynamics ensembles and forward models using experimental data
errJOURNAL OF CHEMICAL PHYSICS
IF3.1
err2023-06-05
err2
errOAAI
errFrohlking, Thorben; Bernetti, Mattia; Bussi, Giovanni
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Atomistic Picture of Opening-Closing Dynamics of DNA Holliday Junction Obtained by Molecular Simulations
errJOURNAL OF CHEMICAL INFORMATION AND MODELING
IF5.3
err2023-04-26
err6
errOAAI
errZhang, Zhengyue; Sponer, Jiri; Bussi, Giovanni; Mlynsky, Vojtech; Sulc, Petr; Simmons, Chad R.; Stephanopoulos, Nicholas; Krepl, Miroslav
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Alchemical Metadynamics: Adding Alchemical Variables to Metadynamics to Enhance Sampling in Free Energy Calculations
errJOURNAL OF CHEMICAL THEORY AND COMPUTATION
IF5.5
err2023-02-28
err12
errOAAI
errHsu, Wei-Tse; Piomponi, Valerio; Merz, Pascal T.; Bussi, Giovanni; Shirts, Michael R.
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Integrating experimental data with molecular simulations to investigate RNA structural dynamics
errCURRENT OPINION IN STRUCTURAL BIOLOGY
IF7
err2023-02-01
err14
errOAAI
errBernetti, Mattia; Bussi, Giovanni
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errSave
Exploration, Representation, and Rationalization of the Conformational Phase Space of N-Glycans
errJOURNAL OF CHEMICAL INFORMATION AND MODELING
IF5.3
err2022-09-30
err4
errOAAI
errGrothaus, Isabell Louise; Bussi, Giovanni; Ciacchi, Lucio Colombi
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Molecular Simulations Matching Denaturation Experiments for N6-Methyladenosine
errACS CENTRAL SCIENCE
IF10.4
err2022-08-03
err6
errOAAI
errPiomponi, Valerio; Froehlking, Thorben; Bernetti, Mattia; Bussi, Giovanni
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Automatic Learning of Hydrogen-Bond Fixes in the AMBER RNA Force Field
errJOURNAL OF CHEMICAL THEORY AND COMPUTATION
IF5.5
err2022-06-14
err19
errOAAI
errFrohlking, Thorben; Mlynsky, Vojtech; Janecek, Michal; Kuhrova, Petra; Krepl, Miroslav; Banas, Pavel; Sponer, Jiri; Bussi, Giovanni
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Toward Convergence in Folding Simulations of RNA Tetraloops: Comparison of Enhanced Sampling Techniques and Effects of Force Field Modifications
errJOURNAL OF CHEMICAL THEORY AND COMPUTATION
IF5.5
err2022-04-01
err24
PREAI
errMlynsky, Vojtech; Janecek, Michal; Kuhrova, Petra; Frohlking, Thorben; Otyepka, Michal; Bussi, Giovanni; Banas, Pavel; Sponer, Jiri
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Molecular states and spin crossover of hemin studied by DNA origami enabled single-molecule surface-enhanced Raman scattering
errNANOSCALE
IF5.1
err2022-01-01
err10
errOAAI
errDutta, Anushree; Tapio, Kosti; Suma, Antonio; Mostafa, Amr; Kanehira, Yuya; Carnevale, Vincenzo; Bussi, Giovanni; Bald, Ilko
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Reweighting of molecular simulations with explicit-solvent SAXS restraints elucidates ion-dependent RNA ensembles
errNUCLEIC ACIDS RESEARCH
IF13.1
err2021-06-09
err23
errOAAI
errBernetti, Mattia; Hall, Kathleen B.; Bussi, Giovanni
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Research Directions

No research directions
Co-authors
Cooperation Journals
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J. Fraser Stoddart
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M
Michele Parrinello
H-index: 155 · Papers: 924
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Michele Vendruscolo
H-index: 118 · Papers: 1.1K
P
Piero Carninci
H-index: 117 · Papers: 655
G
Gregory A. Voth
H-index: 114 · Papers: 985
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