Adam K. Sieradzan

11 papers Journal 11
YearRankTypeTitle / Venue / Authors
2024 J jnl
Multi-GPU UNRES for scalable coarse-grained simulations of very large protein systems.
Comput. Phys. Commun.
Krzysztof M. Ocetkiewicz, Cezary Czaplewski, Henryk Krawczyk, Agnieszka G. Lipska, Adam Liwo, Jerzy Proficz, Adam K. Sieradzan, Pawel Czarnul
2023 J jnl
Long-time scale simulations of virus-like particles from three human-norovirus strains.
J. Comput. Chem.
Agnieszka G. Lipska, Adam K. Sieradzan, Cezary Czaplewski, Andrea D. Lipinska, Krzysztof M. Ocetkiewicz, Jerzy Proficz, Pawel Czarnul, Henryk Krawczyk, Adam Liwo
2023 J jnl
Optimization of parallel implementation of UNRES package for coarse-grained simulations to treat large proteins.
J. Comput. Chem.
Adam K. Sieradzan, Jordi Sans-Duñó, Emilia A. Lubecka, Cezary Czaplewski, Agnieszka G. Lipska, Henryk Leszczynski, Krzysztof M. Ocetkiewicz, Jerzy Proficz, Pawel Czarnul, Henryk Krawczyk, Adam Liwo
2023 J jnl
UNRES-GPU for physics-based coarse-grained simulations of protein systems at biological time- and size-scales.
Bioinform.
Krzysztof M. Ocetkiewicz, Cezary Czaplewski, Henryk Krawczyk, Agnieszka G. Lipska, Adam Liwo, Jerzy Proficz, Adam K. Sieradzan, Pawel Czarnul
2020 J jnl
Improved Consensus-Fragment Selection in Template-Assisted Prediction of Protein Structures with the UNRES Force Field in CASP13.
J. Chem. Inf. Model.
Agnieszka S. Karczynska, Karolina Zieba, Urszula Uciechowska, Magdalena A. Mozolewska, Pawel Krupa, Emilia A. Lubecka, Agnieszka G. Lipska, Celina Sikorska, Sergey A. Samsonov, Adam K. Sieradzan, Artur Gieldon, Adam Liwo, Rafal Slusarz, Magdalena Slusarz, Jooyoung Lee, Keehyoung Joo, Cezary Czaplewski
2018 J jnl
A new protein nucleic-acid coarse-grained force field based on the UNRES and NARES-2P force fields.
J. Comput. Chem.
Adam K. Sieradzan, Artur Gieldon, Yanping Yin, Yi He, Harold A. Scheraga, Adam Liwo
2018 J jnl
High Performance Computing with Coarse Grained Model of Biological Macromolecules.
Supercomput. Front. Innov.
Emilia A. Lubecka, Adam K. Sieradzan, Cezary Czaplewski, Pawel Krupa, Adam Liwo
2018 J jnl
UNRES server for physics-based coarse-grained simulations and prediction of protein structure, dynamics and thermodynamics.
Nucleic Acids Res.
Cezary Czaplewski, Agnieszka S. Karczynska, Adam K. Sieradzan, Adam Liwo
2017 J jnl
Introduction of steered molecular dynamics into UNRES coarse-grained simulations package.
J. Comput. Chem.
Adam K. Sieradzan, Rafal Jakubowski
2016 J jnl
Performance of protein-structure predictions with the physics-based UNRES force field in CASP11.
Bioinform.
Pawel Krupa, Magdalena A. Mozolewska, Marta Wisniewska, Yanping Yin, Yi He, Adam K. Sieradzan, Robert Ganzynkowicz, Agnieszka G. Lipska, Agnieszka S. Karczynska, Magdalena Slusarz, Rafal Slusarz, Artur Gieldon, Cezary Czaplewski, Dawid Jagiela, Bartlomiej Zaborowski, Harold A. Scheraga, Adam Liwo
2015 J jnl
Introduction of periodic boundary conditions into UNRES force field.
J. Comput. Chem.
Adam K. Sieradzan