Petr Sulc

Publication Activity (10 Years)

Years Active: 2010-2023
Publications (10 Years): 9

Top Topics

Secondary Structure

Top Venues

J. Comput. Chem.

Nucleic Acids Res.

J. Chem. Inf. Model.

Publications

Erik Poppleton, Michael Matthies, Debesh Mandal, Flavio Romano, Petr Sulc, Lorenzo Rovigatti
oxDNA: coarse-grained simulations of nucleic acids made simple. J. Open Source Softw. 8 (81) (2023)
Matthew L. Sample, Michael Matthies, Petr Sulc
Coarse-Grained Simulations Of Dna And Rna Systems With Oxdna And Oxrna Models: Tutorial. WSC (2023)
Zhengyue Zhang, Jirí Sponer, Giovanni Bussi, Vojtech Mlýnský, Petr Sulc, Chad R. Simmons, Nicholas Stephanopoulos, Miroslav Krepl
Atomistic Picture of Opening-Closing Dynamics of DNA Holliday Junction Obtained by Molecular Simulations. J. Chem. Inf. Model. 63 (9) (2023)
Erik Poppleton, Aatmik Mallya, Swarup Dey, Joel Joseph, Petr Sulc
Nanobase.org: a repository for DNA and RNA nanostructures. Nucleic Acids Res. 50 (D1) (2022)
Andrea Di Gioacchino, Jonah Procyk, Marco Molari, John S. Schreck, Yu Zhou, Yan Liu, Rémi Monasson, Simona Cocco, Petr Sulc
Generative and interpretable machine learning for aptamer design and analysis of in vitro sequence selection. PLoS Comput. Biol. 18 (9) (2022)
Menghan Liu, Erik Poppleton, Giulia Pedrielli, Petr Sulc, Dimitri P. Bertsekas
ExpertRNA: A New Framework for RNA Secondary Structure Prediction. INFORMS J. Comput. 34 (5) (2022)
Erik Poppleton, Roger Romero, Aatmik Mallya, Lorenzo Rovigatti, Petr Sulc
OxDNA.org: a public webserver for coarse-grained simulations of DNA and RNA nanostructures. Nucleic Acids Res. 49 (Webserver-Issue) (2021)
Antonio Suma, Erik Poppleton, Michael Matthies, Petr Sulc, Flavio Romano, Ard A. Louis, Jonathan P. K. Doye, Cristian Micheletti, Lorenzo Rovigatti
TacoxDNA: A user-friendly web server for simulations of complex DNA structures, from single strands to origami. J. Comput. Chem. 40 (29) (2019)
Petr Sulc, Ludek Pesek, Vítezslav Bula, Jan Cibulka, Tomás Bohác, Hubert Tasek
Pre-stressed rubber material constant estimation for resilient wheel application. Adv. Eng. Softw. 113 (2017)
Lorenzo Rovigatti, Petr Sulc, István Z. Reguly, Flavio Romano
A comparison between parallelization approaches in molecular dynamics simulations on GPUs. J. Comput. Chem. 36 (1) (2015)
Petr Sulc, Thomas E. Ouldridge, Flavio Romano, Jonathan P. K. Doye, Ard A. Louis
Simulating a burnt-bridges DNA motor with a coarse-grained DNA model. Nat. Comput. 13 (4) (2014)
Petr Sulc, Scott Backhaus, Michael Chertkov
Optimal Distributed Control of Reactive Power via the Alternating Direction Method of Multipliers. CoRR (2013)
Konstantin S. Turitsyn, Petr Sulc, Scott Backhaus, Michael Chertkov
Options for Control of Reactive Power by Distributed Photovoltaic Generators. Proc. IEEE 99 (6) (2011)
Petr Sulc, Andreas Wagner, Olivier C. Martin
Quantifying Slow Evolutionary Dynamics in RNA Fitness Landscapes. J. Bioinform. Comput. Biol. 8 (6) (2010)