Sandro Bottaro

Cited by

	All	Since 2016
Citations	1215	1052
h-index	21	18
i10-index	26	24

380

190

285

2011201220132014201520162017201820192020202110 15 44 37 48 73 106 189 244 367 68

Co-authors

Giovanni BussiScuola Internazionale Superiore di Studi Avanzati, Trieste, ItalyVerified email at sissa.it
Kresten Lindorff-LarsenLinderstrøm-Lang Centre for Protein Science, Department of Biology, University of CopenhagenVerified email at bio.ku.dk
Wouter BoomsmaAssociate Professor, Department of Computer Science, University of CopenhagenVerified email at di.ku.dk
Thomas HamelryckBioinformatics center, University of CopenhagenVerified email at binf.ku.dk
Jesper Ferkinghoff-BorgAssociate Professor, Principal Scientist, Novo Nordisk A/SVerified email at novonordisk.com
Christian AndreettaUniv. of Copenhagen, Denmark, and Uni Computing, Uni Research, NorwayVerified email at uni.no
Jes FrellsenAssociate Professor, Technical University of Denmark (DTU)Verified email at dtu.dk
Alejandro Gil-LeyZymeworks, Inc.Verified email at zymeworks.com
Giovanni PinamontiFreie Universität, BerlinVerified email at fu-berlin.de
Simón PobleteUniversidad Austral de ChileVerified email at dlab.cl
Francesco Di PalmaIstituto Italiano di TecnologiaVerified email at iit.it
Robert BestSenior Investigator, National Institutes of HealthVerified email at helix.nih.gov
Simon OlssonAssistant Professor, Chalmers University of TechnologyVerified email at chalmers.se
Tim HarderResearch Scientist at Philips ResearchVerified email at philips.com
Kristoffer Enøe JohanssonDepartment of Pharmacy, University of CopenhagenVerified email at sund.ku.dk
Richard André CunhaUniversity of ZurichVerified email at chem.uzh.ch
Nils G WalterUniversity of Michigan, Ann ArborVerified email at umich.edu
Tone BengtsenPostdoc, machine learning and proteins, Department of Computer Science, University of CopenhagenVerified email at bio.ku.dk
Pengfei TianProtein Design Scientist at Novozymes A/SVerified email at nih.gov
Kasper StovgaardBioinformatics Centre, University of CopenhagenVerified email at ihfood.dk

Sandro Bottaro

University of Copenhagen

Verified email at bio.ku.dk - Homepage

RNA modeling Molecular Dynamics Integrative structural biology Computational Biology


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RNA structural dynamics as captured by molecular simulations: A comprehensive overview J Šponer, G Bussi, M Krepl, P Banáš, S Bottaro, RA Cunha, A Gil-Ley, ... Chemical reviews 118 (8), 4177-4338, 2018	176	2018
Promoting transparency and reproducibility in enhanced molecular simulations M Bonomi, G Bussi, C Camilloni, GA Tribello, P Banáš, A Barducci, ... Nature methods 16 (8), 670-673, 2019	107	2019
Biophysical experiments and biomolecular simulations: A perfect match? S Bottaro, K Lindorff-Larsen Science 361 (6400), 355-360, 2018	96	2018
The role of nucleobase interactions in RNA structure and dynamics S Bottaro, F Di Palma, G Bussi Nucleic acids research 42 (21), 13306-13314, 2014	83	2014
Potentials of mean force for protein structure prediction vindicated, formalized and generalized T Hamelryck, M Borg, M Paluszewski, J Paulsen, J Frellsen, C Andreetta, ... PloS one 5 (11), e13714, 2010	79	2010
Computer folding of RNA tetraloops: identification of key force field deficiencies P Kührová, RB Best, S Bottaro, G Bussi, J Šponer, M Otyepka, P Banáš Journal of Chemical Theory and Computation 12 (9), 4534-4548, 2016	66	2016
Conformational ensembles of RNA oligonucleotides from integrating NMR and molecular simulations S Bottaro, G Bussi, SD Kennedy, DH Turner, K Lindorff-Larsen Science Advances 4 (5), eaar8521, 2018	58	2018
Free Energy Landscape of GAGA and UUCG RNA Tetraloops S Bottaro, P Banáš, J Sponer, G Bussi Journal of Physical Chemistry Letters 7 (20), 4032-4038, 2016	55	2016
Empirical corrections to the amber RNA force field with target metadynamics A Gil-Ley, S Bottaro, G Bussi Journal of chemical theory and computation 12 (6), 2790-2798, 2016	42	2016
Integrating molecular simulation and experimental data: a Bayesian/maximum entropy reweighting approach S Bottaro, T Bengtsen, K Lindorff-Larsen Structural Bioinformatics, 219-240, 2020	37	2020
PHAISTOS: A framework for Markov chain Monte Carlo simulation and inference of protein structure W Boomsma, J Frellsen, T Harder, S Bottaro, KE Johansson, P Tian, ... Journal of computational chemistry 34 (19), 1697-1705, 2013	36	2013
PHAISTOS: A framework for Markov chain Monte Carlo simulation and inference of protein structure W Boomsma, J Frellsen, T Harder, S Bottaro, KE Johansson, P Tian, ... Journal of computational chemistry 34 (19), 1697-1705, 2013	36	2013
Elastic network models for RNA: a comparative assessment with molecular dynamics and SHAPE experiments G Pinamonti, S Bottaro, C Micheletti, G Bussi Nucleic Acids Research 43 (15), 7260-9, 2015	35	2015
Variational optimization of an all-atom implicit solvent force field to match explicit solvent simulation data S Bottaro, K Lindorff-Larsen, RB Best Journal of chemical theory and computation 9 (12), 5641-5652, 2013	34	2013
RNA Folding Pathways in Stop-Motion S Bottaro, A Gil-Ley, G Bussi Nucleic Acids Research, 2016	31	2016
Accuracy of the pseudopotential approximation in ab initio theoretical spectroscopies E Luppi, HC Weissker, S Bottaro, F Sottile, V Veniard, L Reining, G Onida Physical Review B 78 (24), 245124, 2008	29	2008
Subtle Monte Carlo updates in dense molecular systems S Bottaro, W Boomsma, K E. Johansson, C Andreetta, T Hamelryck, ... Journal of chemical theory and computation 8 (2), 695-702, 2012	28	2012
Mapping the universe of RNA tetraloop folds S Bottaro, K Lindorff-Larsen Biophysical journal 113 (2), 257-267, 2017	27	2017
Kissing loop interaction in adenine riboswitch: insights from umbrella sampling simulations F Di Palma, S Bottaro, G Bussi BMC bioinformatics 16 (9), 1-9, 2015	25	2015
How to learn from inconsistencies: Integrating molecular simulations with experimental data S Orioli, AH Larsen, S Bottaro, K Lindorff-Larsen Computational Approaches for Understanding Dynamical Systems: Protein …, 2020	22	2020

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