| A unified coarse-grained model of biological macromolecules based on mean-field multipolemultipole interactions A Liwo, M Baranowski, C Czaplewski, E Gołaś, Y He, D Jagieła, P Krupa, ... Journal of molecular modeling 20, 1-15, 2014 | 118 | 2014 |
| WeFold: a coopetition for protein structure prediction GA Khoury, A Liwo, F Khatib, H Zhou, G Chopra, J Bacardit, LO Bortot, ... Proteins: Structure, Function, and Bioinformatics 82 (9), 1850-1868, 2014 | 69 | 2014 |
| Lessons from application of the UNRES force field to predictions of structures of CASP10 targets Y He, MA Mozolewska, P Krupa, AK Sieradzan, TK Wirecki, A Liwo, ... Proceedings of the National Academy of Sciences 110 (37), 14936-14941, 2013 | 62 | 2013 |
| Physics-based potentials for the coupling between backbone-and side-chain-local conformational states in the united residue (UNRES) force field for protein simulations AK Sieradzan, P Krupa, HA Scheraga, A Liwo, C Czaplewski Journal of chemical theory and computation 11 (2), 817-831, 2015 | 49 | 2015 |
| Prediction of protein assemblies, the next frontier: The CASP14‐CAPRI experiment MF Lensink, G Brysbaert, T Mauri, N Nadzirin, S Velankar, RAG Chaleil, ... Proteins: Structure, Function, and Bioinformatics 89 (12), 1800-1823, 2021 | 45 | 2021 |
| Performance of protein-structure predictions with the physics-based UNRES force field in CASP11 P Krupa, MA Mozolewska, M Wiśniewska, Y Yin, Y He, AK Sieradzan, ... Bioinformatics 32 (21), 3270-3278, 2016 | 45 | 2016 |
| UNRES server for physics-based coarse-grained simulations and prediction of protein structure, dynamics and thermodynamics C Czaplewski, A Karczyńska, AK Sieradzan, A Liwo Nucleic Acids Research 46 (W1), W304-W309, 2018 | 43 | 2018 |
| A general method for the derivation of the functional forms of the effective energy terms in coarse-grained energy functions of polymers. I. Backbone potentials of coarse
AK Sieradzan, M Makowski, A Augustynowicz, A Liwo The Journal of Chemical Physics 146 (12), 124106, 2017 | 40 | 2017 |
| A general method for the derivation of the functional forms of the effective energy terms in coarse-grained energy functions of polymers. III. Determination of scale-consistent
A Liwo, AK Sieradzan, AG Lipska, C Czaplewski, IS Joung, ... The Journal of Chemical Physics 150 (15), 155104, 2019 | 37 | 2019 |
| Improvement of the treatment of loop structures in the UNRES force field by inclusion of coupling between backbone-and side-chain-local conformational states P Krupa, AK Sieradzan, S Rackovsky, M Baranowski, S Ołdziej, ... Journal of chemical theory and computation 9 (10), 4620-4632, 2013 | 37 | 2013 |
| Molecular dynamics insights into protein‐glycosaminoglycan systems from microsecond‐scale simulations KK Bojarski, AK Sieradzan, SA Samsonov Biopolymers 110 (7), e23252, 2019 | 29 | 2019 |
| Folding and self-assembly of a small protein complex AK Sieradzan, A Liwo, UHE Hansmann Journal of chemical theory and computation 8 (9), 3416-3422, 2012 | 29 | 2012 |
| Determination of Effective Potentials for the Stretching of Cα··· Cα Virtual Bonds in Polypeptide Chains for Coarse-Grained Simulations of Proteins from ab Initio Energy
AK Sieradzan, HA Scheraga, A Liwo Journal of chemical theory and computation 8 (4), 1334-1343, 2012 | 28 | 2012 |
| Assessment of chemical‐crosslink‐assisted protein structure modeling in CASP13 JE Fajardo, R Shrestha, N Gil, A Belsom, SN Crivelli, C Czaplewski, ... Proteins: Structure, Function, and Bioinformatics 87 (12), 1283-1297, 2019 | 26 | 2019 |
| Extension of UNRES Force Field to Treat Polypeptide Chains with d-Amino Acid Residues AK Sieradzan, UHE Hansmann, HA Scheraga, A Liwo Journal of chemical theory and computation 8 (11), 4746-4757, 2012 | 24 | 2012 |
| Revised Backbone-Virtual-Bond-Angle Potentials to Treat the l- and d-Amino Acid Residues in the Coarse-Grained United Residue (UNRES) Force Field AK Sieradzan, A Niadzvedtski, HA Scheraga, A Liwo Journal of Chemical Theory and Computation 10 (5), 2194-2203, 2014 | 21 | 2014 |
| An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12 C Keasar, LJ McGuffin, B Wallner, G Chopra, B Adhikari, D Bhattacharya, ... Scientific reports 8 (1), 1-18, 2018 | 20 | 2018 |
| An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12 C Keasar, LJ McGuffin, B Wallner, G Chopra, B Adhikari, D Bhattacharya, ... Scientific reports 8 (1), 1-18, 2018 | 20 | 2018 |
| Peierls-Nabarro barrier and protein loop propagation AK Sieradzan, A Niemi, X Peng Physical Review E 90 (6), 062717, 2014 | 20 | 2014 |
| Theory and practice of coarse-grained molecular dynamics of biologically important systems A Liwo, C Czaplewski, AK Sieradzan, AG Lipska, SA Samsonov, ... Biomolecules 11 (9), 1347, 2021 | 19 | 2021 |
