Petr Sulc

18 papers B 1Misc 1Journal 16
YearRankTypeTitle / Venue / Authors
2024 J jnl
Evolving to Find Optimizations Humans Miss: Using Evolutionary Computation to Improve GPU Code for Bioinformatics Applications.
ACM Trans. Evol. Learn. Optim.
Jhe-Yu Liou, Muaaz Awan, Kirtus G. Leyba, Petr Sulc, Steven A. Hofmeyr, Carole-Jean Wu, Stephanie Forrest
2024 J jnl
Preface.
Nat. Comput.
Matthew R. Lakin, Petr Sulc
2023 J jnl
Atomistic Picture of Opening-Closing Dynamics of DNA Holliday Junction Obtained by Molecular Simulations.
J. Chem. Inf. Model.
Zhengyue Zhang, Jirí Sponer, Giovanni Bussi, Vojtech Mlýnský, Petr Sulc, Chad R. Simmons, Nicholas Stephanopoulos, Miroslav Krepl
2023 Misc conf
Coarse-Grained Simulations Of Dna And Rna Systems With Oxdna And Oxrna Models: Tutorial.
WSC
Matthew L. Sample, Michael Matthies, Petr Sulc
2023 J jnl
oxDNA: coarse-grained simulations of nucleic acids made simple.
J. Open Source Softw.
Erik Poppleton, Michael Matthies, Debesh Mandal, Flavio Romano, Petr Sulc, Lorenzo Rovigatti
2022 J jnl
ExpertRNA: A New Framework for RNA Secondary Structure Prediction.
INFORMS J. Comput.
Menghan Liu, Erik Poppleton, Giulia Pedrielli, Petr Sulc, Dimitri P. Bertsekas
2022 J jnl
Generative and interpretable machine learning for aptamer design and analysis of in vitro sequence selection.
PLoS Comput. Biol.
Andrea Di Gioacchino, Jonah Procyk, Marco Molari, John S. Schreck, Yu Zhou, Yan Liu, Rémi Monasson, Simona Cocco, Petr Sulc
2022 J jnl
Nanobase.org: a repository for DNA and RNA nanostructures.
Nucleic Acids Res.
Erik Poppleton, Aatmik Mallya, Swarup Dey, Joel Joseph, Petr Sulc
2021 B ed.
27th International Conference on DNA Computing and Molecular Programming, DNA 2021, Oxford, UK (Virtual Conference), September 13-16, 2021
DNA
Matthew R. Lakin, Petr Sulc
2021 J jnl
OxDNA.org: a public webserver for coarse-grained simulations of DNA and RNA nanostructures.
Nucleic Acids Res.
Erik Poppleton, Roger Romero, Aatmik Mallya, Lorenzo Rovigatti, Petr Sulc
2019 J jnl
TacoxDNA: A user-friendly web server for simulations of complex DNA structures, from single strands to origami.
J. Comput. Chem.
Antonio Suma, Erik Poppleton, Michael Matthies, Petr Sulc, Flavio Romano, Ard A. Louis, Jonathan P. K. Doye, Cristian Micheletti, Lorenzo Rovigatti
2017 J jnl
Pre-stressed rubber material constant estimation for resilient wheel application.
Adv. Eng. Softw.
Petr Sulc, Ludek Pesek, Vítezslav Bula, Jan Cibulka, Tomás Bohác, Hubert Tasek
2015 J jnl
A comparison between parallelization approaches in molecular dynamics simulations on GPUs.
J. Comput. Chem.
Lorenzo Rovigatti, Petr Sulc, István Z. Reguly, Flavio Romano
2014 J jnl
Simulating a burnt-bridges DNA motor with a coarse-grained DNA model.
Nat. Comput.
Petr Sulc, Thomas E. Ouldridge, Flavio Romano, Jonathan P. K. Doye, Ard A. Louis
2013 J jnl
Optimal Distributed Control of Reactive Power via the Alternating Direction Method of Multipliers.
CoRR
Petr Sulc, Scott Backhaus, Michael Chertkov
2011 J jnl
Options for Control of Reactive Power by Distributed Photovoltaic Generators.
Proc. IEEE
Konstantin S. Turitsyn, Petr Sulc, Scott Backhaus, Michael Chertkov
2010 J jnl
Quantifying Slow Evolutionary Dynamics in RNA Fitness Landscapes.
J. Bioinform. Comput. Biol.
Petr Sulc, Andreas Wagner, Olivier C. Martin
2009 J jnl
Belief propagation for graph partitioning
CoRR
Petr Sulc, Lenka Zdeborová