Skip to content

Home Search Authors Pakistan News Saved

SciRah

SciRah does not host or store research papers. Results come live from free, official scholarly APIs, and every paper links back to its original source.

Data sources

OpenAlex
Semantic Scholar
Crossref
CORE
arXiv
PubMed

Privacy policy Terms of service

A. Liwo · SciRah

Researcher profile · Semantic Scholar

A. Liwo

Share profile

A. Liwo — researcher profile on SciRah

h-index: 54
Works: 335
Citations: 10K

Most-cited papers

A unified coarse-grained model of biological macromolecules based on mean-field multipole–multipole interactions
A. Liwo, Maciej Baranowski, C. Czaplewski, Ewa I. Gołaś +14 more
2014Journal of Molecular Modeling143 citations Open access
Semantic Scholar
Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment
M. Lensink, G. Brysbaert, Théo Mauri, Nurul Nadzirin +104 more
2021Proteins: Structure, Function, and Bioinformatics104 citations Open access
Semantic Scholar
Blind prediction of homo- and hetero-protein complexes: The CASP13-CAPRI experiment
M. Lensink, G. Brysbaert, Nurul Nadzirin, S. Velankar +101 more
2019Proteins: Structure, Function, and Bioinformatics104 citations Open access
Semantic Scholar
Protein folds vs. protein folding: Differing questions, different challenges
Shi-Jie Chen, Mubashir Hassan, R. Jernigan, Ke-Jue Jia +20 more
2022Proceedings of the National Academy of Sciences of the United States of America85 citations Open access
Semantic Scholar
Mean-field interactions between nucleic-acid-base dipoles can drive the formation of the double helix
Yi He, Maciej Maciejczyk, S. Ołdziej, H. Scheraga +1 more
2013Physical Review Letters70 citations Open access
Semantic Scholar
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 backbone-local and correlation potentials in the UNRES force field and force-field calibration and validation.
A. Liwo, A. Sieradzan, A. Lipska, C. Czaplewski +4 more
2019Journal of Chemical Physics66 citations
Semantic Scholar
UNRES server for physics-based coarse-grained simulations and prediction of protein structure, dynamics and thermodynamics
C. Czaplewski, Agnieszka S. Karczynska, A. Sieradzan, A. Liwo
2018Nucleic Acids Res.66 citations Open access
Semantic Scholar
Theory and Practice of Coarse-Grained Molecular Dynamics of Biologically Important Systems
A. Liwo, C. Czaplewski, A. Sieradzan, A. Lipska +2 more
2021Biomolecules65 citations Open access
Semantic Scholar
Lessons from application of the UNRES force field to predictions of structures of CASP10 targets
Yi He, M. Mozolewska, P. Krupa, A. Sieradzan +9 more
2013Proceedings of the National Academy of Sciences of the United States of America64 citations Open access
Semantic Scholar
WeFold: A Coopetition for Protein Structure Prediction
George A. Khoury, A. Liwo, F. Khatib, Hong-Yi Zhou +26 more
2014Proteins: Structure, Function, and Bioinformatics57 citations Open access
Semantic Scholar
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-grained polypeptide chains.
A. Sieradzan, M. Makowski, A. Augustynowicz, A. Liwo
2017Journal of Chemical Physics56 citations
Semantic Scholar
Insights into the structure and dynamics of lysyl oxidase propeptide, a flexible protein with numerous partners
Sylvain D. Vallet, A. Miele, Urszula Uciechowska-Kaczmarzyk, A. Liwo +3 more
2018Scientific Reports50 citations Open access
Semantic Scholar
Performance of protein-structure predictions with the physics-based UNRES force field in CASP11
P. Krupa, M. Mozolewska, M. Wiśniewska, Yanping Yin +13 more
2016Bioinform.48 citations Open access
Semantic Scholar
Maximum Likelihood Calibration of the UNRES Force Field for Simulation of Protein Structure and Dynamics
P. Krupa, Anna Halabis, Wioletta Zmudzinska, S. Ołdziej +2 more
2017Journal of Chemical Information and Modeling45 citations Open access
Semantic Scholar
Physics-based potentials for the coupling between backbone- and side-chain-local conformational states in the united residue (UNRES) force field for protein simulations
A. Sieradzan, P. Krupa, H. Scheraga, A. Liwo +1 more
2015Journal of Chemical Theory and Computation44 citations Open access
Semantic Scholar
DNA Duplex Formation with a Coarse-Grained Model
Maciej Maciejczyk, A. Spasic, A. Liwo, H. Scheraga
2014Journal of Chemical Theory and Computation44 citations Open access
Semantic Scholar
Folding kinetics of WW domains with the united residue force field for bridging microscopic motions and experimental measurements
R. Zhou, G. G. Maisuradze, D. Suñol, T. Todorovski +5 more
2014Proceedings of the National Academy of Sciences of the United States of America42 citations Open access
Semantic Scholar
A Maximum-Likelihood Approach to Force-Field Calibration
Bartlomiej Zaborowski, Dawid Jagiela, C. Czaplewski, Anna Halabis +7 more
2015Journal of Chemical Information and Modeling34 citations
Semantic Scholar
Molecular modeling of the binding modes of the Iron-sulfur protein to the Jac1 co-chaperone from Saccharomyces cerevisiae by all-atom and coarse-grained approaches
M. Mozolewska, P. Krupa, H. A. Scheraga, A. Liwo
2015Proteins: Structure, Function, and Bioinformatics33 citations Open access
Semantic Scholar
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, A. Sieradzan, S. Rackovsky, Maciej Baranowski +4 more
2013Journal of Chemical Theory and Computation31 citations Open access
Semantic Scholar
Optimization of a Nucleic Acids united-RESidue 2-Point model (NARES-2P) with a maximum-likelihood approach.
Yi He, A. Liwo, H. Scheraga
2015Journal of Chemical Physics30 citations Open access
Semantic Scholar
Accounting for a mirror-image conformation as a subtle effect in protein folding
Khatuna Kachlishvili, G. G. Maisuradze, O. A. Martin, A. Liwo +2 more
2014Proceedings of the National Academy of Sciences of the United States of America27 citations Open access
Semantic Scholar
Folding and self-assembly of a small protein complex
A. Sieradzan, A. Liwo, U. Hansmann
2012Journal of Chemical Theory and Computation27 citations Open access
Semantic Scholar
Optimization of parallel implementation of UNRES package for coarse‐grained simulations to treat large proteins
A. Sieradzan, Jordi Sans-Duñó, E. Lubecka, C. Czaplewski +7 more
2022Journal of Computational Chemistry26 citations
Semantic Scholar
Modeling protein structures with the coarse-grained UNRES force field in the CASP14 experiment.
Anna Antoniak, Iga Biskupek, K. Bojarski, C. Czaplewski +15 more
2021Journal of Molecular Graphics and Modelling25 citations
Semantic Scholar
Evaluation of the scale-consistent UNRES force field in template-free prediction of protein structures in the CASP13 experiment.
E. Lubecka, Agnieszka S. Karczynska, A. Lipska, A. Sieradzan +13 more
2019Journal of Molecular Graphics and Modelling25 citations Open access
Semantic Scholar
Simple Physics-Based Analytical Formulas for the Potentials of Mean Force of the Interaction of Amino Acid Side Chains in Water. VII. Charged–Hydrophobic/Polar and Polar–Hydrophobic/Polar Side Chains
M. Makowski, A. Liwo, H. Scheraga
2017Journal of Physical Chemistry B24 citations Open access
Semantic Scholar
Computational methods to study the structure and dynamics of biomolecules and biomolecular processes : from bioinformatics to molecular quantum mechanics
A. Liwo
201424 citations
Semantic Scholar
UNRES-Dock - protein-protein and peptide-protein docking by coarse-grained replica-exchange MD simulations
P. Krupa, Agnieszka S. Karczynska, M. Mozolewska, A. Liwo +1 more
2020Bioinform.23 citations
Semantic Scholar
Prediction of protein structure with the coarse‐grained UNRES force field assisted by small X‐ray scattering data and knowledge‐based information
Agnieszka S. Karczynska, M. Mozolewska, P. Krupa, A. Giełdoń +2 more
2018Proteins: Structure, Function, and Bioinformatics23 citations
Semantic Scholar
Kinks, loops, and protein folding, with protein A as an example.
A. Krokhotin, A. Liwo, G. G. Maisuradze, A. Niemi +1 more
2014Journal of Chemical Physics23 citations Open access
Semantic Scholar
Dynamics of Disulfide-Bond Disruption and Formation in the Thermal Unfolding of Ribonuclease A.
P. Krupa, A. Sieradzan, M. Mozolewska, Hui-Yu Li +2 more
2017Journal of Chemical Theory and Computation22 citations
Semantic Scholar
Coexistence of phases in a protein heterodimer.
A. Krokhotin, A. Liwo, A. Niemi, H. Scheraga
2012Journal of Chemical Physics21 citations Open access
Semantic Scholar
Assessment of chemical‐crosslink‐assisted protein structure modeling in CASP13
J. E. Fajardo, Rojan Shrestha, Nelson Gil, Adam Belsom +17 more
2020Proteins: Structure, Function, and Bioinformatics20 citations Open access
Semantic Scholar
An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12
C. Keasar, L. McGuffin, B. Wallner, G. Chopra +133 more
2018Scientific Reports20 citations Open access
Semantic Scholar
In situ data analytics and indexing of protein trajectories
Travis Johnston, Bo-Yu Zhang, A. Liwo, S. Crivelli +1 more
2017Journal of Computational Chemistry20 citations
Semantic Scholar
Physics-based potentials for coarse-grained modeling of protein-DNA interactions
Yanping Yin, A. Sieradzan, A. Liwo, Yi He +1 more
2015Journal of Chemical Theory and Computation20 citations Open access
Semantic Scholar
Local vs global motions in protein folding
G. G. Maisuradze, A. Liwo, P. Senet, H. Scheraga
2013Journal of Chemical Theory and Computation20 citations Open access
Semantic Scholar
Effects of mutation, truncation and temperature on the folding kinetics of a WW domain
G. G. Maisuradze, R. Zhou, A. Liwo, Yi Xiao +1 more
2012Journal of Molecular Biology19 citations Open access
Semantic Scholar
Introduction of a bounded penalty function in contact‐assisted simulations of protein structures to omit false restraints
E. Lubecka, A. Liwo
2019Journal of Computational Chemistry18 citations
Semantic Scholar
Use of the UNRES force field in template-assisted prediction of protein structures and the refinement of server models: Test with CASP12 targets.
Agnieszka S. Karczynska, M. Mozolewska, P. Krupa, A. Giełdoń +8 more
2018Journal of Molecular Graphics and Modelling17 citations
Semantic Scholar
Analysis of Procollagen C-Proteinase Enhancer-1/Glycosaminoglycan Binding Sites and of the Potential Role of Calcium Ions in the Interaction
Jan Potthoff, K. Bojarski, Gergely Kohut, A. Lipska +4 more
2019International Journal of Molecular Sciences16 citations Open access
Semantic Scholar
A new protein nucleic-acid coarse-grained force field based on the UNRES and NARES-2P force fields
A. Sieradzan, A. Giełdoń, Yanping Yin, Yi He +2 more
2018Journal of Computational Chemistry16 citations Open access
Semantic Scholar
Modeling the Structure, Dynamics, and Transformations of Proteins with the UNRES Force Field.
A. Sieradzan, C. Czaplewski, P. Krupa, M. Mozolewska +8 more
2021Methods in molecular biology15 citations
Semantic Scholar
Scale-consistent approach to the derivation of coarse-grained force fields for simulating structure, dynamics, and thermodynamics of biopolymers.
A. Liwo, C. Czaplewski, A. Sieradzan, E. Lubecka +9 more
2020Progress in Molecular Biology and Translational Science15 citations
Semantic Scholar
Protein-Ligand Interaction Energy-Based Entropy Calculations: Fundamental Challenges For Flexible Systems.
Gergely Kohut, A. Liwo, S. Bősze, T. Beke-Somfai +1 more
2018Journal of Physical Chemistry B15 citations Open access
Semantic Scholar
Prediction of Protein Structure by Template-Based Modeling Combined with the UNRES Force Field
P. Krupa, M. Mozolewska, K. Joo, Jooyoung Lee +2 more
2015Journal of Chemical Information and Modeling15 citations
Semantic Scholar
Revised Backbone-Virtual-Bond-Angle Potentials to Treat the l- and d-Amino Acid Residues in the Coarse-Grained United Residue (UNRES) Force Field
A. Sieradzan, Andrei Niadzvedtski, H. Scheraga, A. Liwo
2014Journal of Chemical Theory and Computation15 citations Open access
Semantic Scholar
Introduction of Phosphorylated Residues into the UNRES Coarse-Grained Model: Towards Modeling of Signaling Processes.
A. Sieradzan, Małgorzata Bogunia, Paulina Mech, R. Ganzynkowicz +3 more
2019Journal of Physical Chemistry B13 citations
Semantic Scholar
Use of Restraints from Consensus Fragments of Multiple Server Models To Enhance Protein-Structure Prediction Capability of the UNRES Force Field
M. Mozolewska, P. Krupa, Bartlomiej Zaborowski, A. Liwo +3 more
2016Journal of Chemical Information and Modeling13 citations
Semantic Scholar

Frequent co-authors

Invite them to SciRah by sharing their profile.

C. Czaplewski×24
Invite
C. Czaplewski — researcher profile on SciRah
A. Sieradzan×24
Invite
A. Sieradzan — researcher profile on SciRah
H. Scheraga×22
Invite
H. Scheraga — researcher profile on SciRah
P. Krupa×20
Invite
P. Krupa — researcher profile on SciRah

×16

Invite

M. Mozolewska — researcher profile on SciRah

Invite

A. Lipska — researcher profile on SciRah

Agnieszka S. Karczynska×12

Invite

Agnieszka S. Karczynska — researcher profile on SciRah

A. Giełdoń×10

Invite

A. Giełdoń — researcher profile on SciRah

Invite

Yi He — researcher profile on SciRah

Invite

E. Lubecka — researcher profile on SciRah

Invite

S. Ołdziej — researcher profile on SciRah

Invite

R. Ślusarz — researcher profile on SciRah