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ORCIDBibTeX records: Adam Liwo
@article{DBLP:journals/jcisd/LesniewskiPCCJGTL24,
author = {Mateusz Lesniewski and
Maciej Pyrka and
Cezary Czaplewski and
Nguyen Truong Co and
Yida Jiang and
Zhou Gong and
Chun Tang and
Adam Liwo},
title = {Assessment of Two Restraint Potentials for Coarse-Grained Chemical-Cross-Link-Assisted
Modeling of Protein Structures},
journal = {J. Chem. Inf. Model.},
volume = {64},
number = {4},
pages = {1377--1393},
year = {2024},
url = {https://doi.org/10.1021/acs.jcim.3c01890},
doi = {10.1021/ACS.JCIM.3C01890},
timestamp = {Mon, 01 Apr 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/LesniewskiPCCJGTL24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/SieradzanSLCLLOPCKL23,
author = {Adam K. Sieradzan and
Jordi Sans{-}Du{\~{n}}{\'{o}} and
Emilia A. Lubecka and
Cezary Czaplewski and
Agnieszka G. Lipska and
Henryk Leszczynski and
Krzysztof M. Ocetkiewicz and
Jerzy Proficz and
Pawel Czarnul and
Henryk Krawczyk and
Adam Liwo},
title = {Optimization of parallel implementation of {UNRES} package for coarse-grained
simulations to treat large proteins},
journal = {J. Comput. Chem.},
volume = {44},
number = {4},
pages = {602--625},
year = {2023},
url = {https://doi.org/10.1002/jcc.27026},
doi = {10.1002/JCC.27026},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/SieradzanSLCLLOPCKL23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LipskaSCLOPCKL23,
author = {Agnieszka G. Lipska and
Adam K. Sieradzan and
Cezary Czaplewski and
Andrea D. Lipinska and
Krzysztof M. Ocetkiewicz and
Jerzy Proficz and
Pawel Czarnul and
Henryk Krawczyk and
Adam Liwo},
title = {Long-time scale simulations of virus-like particles from three human-norovirus
strains},
journal = {J. Comput. Chem.},
volume = {44},
number = {16},
pages = {1470--1483},
year = {2023},
url = {https://doi.org/10.1002/jcc.27087},
doi = {10.1002/JCC.27087},
timestamp = {Tue, 12 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/LipskaSCLOPCKL23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LubeckaL22,
author = {Emilia A. Lubecka and
Adam Liwo},
title = {A coarse-grained approach to NMR-data-assisted modeling of protein
structures},
journal = {J. Comput. Chem.},
volume = {43},
number = {31},
pages = {2047--2059},
year = {2022},
url = {https://doi.org/10.1002/jcc.27003},
doi = {10.1002/JCC.27003},
timestamp = {Sun, 13 Nov 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcc/LubeckaL22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/KrupaKMLC21,
author = {Pawel Krupa and
Agnieszka S. Karczynska and
Magdalena A. Mozolewska and
Adam Liwo and
Cezary Czaplewski},
title = {UNRES-Dock - protein-protein and peptide-protein docking by coarse-grained
replica-exchange {MD} simulations},
journal = {Bioinform.},
volume = {37},
number = {11},
pages = {1613--1615},
year = {2021},
url = {https://doi.org/10.1093/bioinformatics/btaa897},
doi = {10.1093/BIOINFORMATICS/BTAA897},
timestamp = {Wed, 16 Mar 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/KrupaKMLC21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LubeckaL21,
author = {Emilia A. Lubecka and
Adam Liwo},
title = {{ESCASA:} Analytical estimation of atomic coordinates from coarse-grained
geometry for nuclear-magnetic-resonance-assisted protein structure
modeling. I. Backbone and H{\(\beta\)} protons},
journal = {J. Comput. Chem.},
volume = {42},
number = {22},
pages = {1579--1589},
year = {2021},
url = {https://doi.org/10.1002/jcc.26695},
doi = {10.1002/JCC.26695},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/LubeckaL21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/KogutGTL21,
author = {Mateusz Kogut and
Zhou Gong and
Chun Tang and
Adam Liwo},
title = {Pseudopotentials for coarse-grained cross-link-assisted modeling of
protein structures},
journal = {J. Comput. Chem.},
volume = {42},
number = {29},
pages = {2054--2067},
year = {2021},
url = {https://doi.org/10.1002/jcc.26736},
doi = {10.1002/JCC.26736},
timestamp = {Tue, 16 Aug 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/KogutGTL21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/KarczynskaZUMKL20,
author = {Agnieszka S. Karczynska and
Karolina Zieba and
Urszula Uciechowska and
Magdalena A. Mozolewska and
Pawel Krupa and
Emilia A. Lubecka and
Agnieszka G. Lipska and
Celina Sikorska and
Sergey A. Samsonov and
Adam K. Sieradzan and
Artur Gieldon and
Adam Liwo and
Rafal Slusarz and
Magdalena Slusarz and
Jooyoung Lee and
Keehyoung Joo and
Cezary Czaplewski},
title = {Improved Consensus-Fragment Selection in Template-Assisted Prediction
of Protein Structures with the {UNRES} Force Field in {CASP13}},
journal = {J. Chem. Inf. Model.},
volume = {60},
number = {3},
pages = {1844--1864},
year = {2020},
url = {https://doi.org/10.1021/acs.jcim.9b00864},
doi = {10.1021/ACS.JCIM.9B00864},
timestamp = {Wed, 22 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/KarczynskaZUMKL20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LubeckaL19,
author = {Emilia A. Lubecka and
Adam Liwo},
title = {Introduction of a bounded penalty function in contact-assisted simulations
of protein structures to omit false restraints},
journal = {J. Comput. Chem.},
volume = {40},
number = {25},
pages = {2164--2178},
year = {2019},
url = {https://doi.org/10.1002/jcc.25847},
doi = {10.1002/JCC.25847},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/LubeckaL19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/SieradzanGYHSL18,
author = {Adam K. Sieradzan and
Artur Gieldon and
Yanping Yin and
Yi He and
Harold A. Scheraga and
Adam Liwo},
title = {A new protein nucleic-acid coarse-grained force field based on the
{UNRES} and {NARES-2P} force fields},
journal = {J. Comput. Chem.},
volume = {39},
number = {28},
pages = {2360--2370},
year = {2018},
url = {https://doi.org/10.1002/jcc.25571},
doi = {10.1002/JCC.25571},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/SieradzanGYHSL18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/KrupaHZOSL18,
author = {Pawel Krupa and
Anna Halabis and
Wioletta Zmudzinska and
Stanislaw Oldziej and
Harold A. Scheraga and
Adam Liwo},
title = {Correction to Maximum Likelihood Calibration of the {UNRES} Force
Field for Simulation of Protein Structure and Dynamics},
journal = {J. Chem. Inf. Model.},
volume = {58},
number = {1},
pages = {206},
year = {2018},
url = {https://doi.org/10.1021/acs.jcim.7b00716},
doi = {10.1021/ACS.JCIM.7B00716},
timestamp = {Tue, 01 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/KrupaHZOSL18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/CzaplewskiKSL18,
author = {Cezary Czaplewski and
Agnieszka S. Karczynska and
Adam K. Sieradzan and
Adam Liwo},
title = {{UNRES} server for physics-based coarse-grained simulations and prediction
of protein structure, dynamics and thermodynamics},
journal = {Nucleic Acids Res.},
volume = {46},
number = {Webserver-Issue},
pages = {W304--W309},
year = {2018},
url = {https://doi.org/10.1093/nar/gky328},
doi = {10.1093/NAR/GKY328},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/CzaplewskiKSL18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/superfri/LubeckaSCKL18,
author = {Emilia A. Lubecka and
Adam K. Sieradzan and
Cezary Czaplewski and
Pawel Krupa and
Adam Liwo},
title = {High Performance Computing with Coarse Grained Model of Biological
Macromolecules},
journal = {Supercomput. Front. Innov.},
volume = {5},
number = {2},
pages = {63--75},
year = {2018},
url = {https://doi.org/10.14529/jsfi180206},
doi = {10.14529/JSFI180206},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/superfri/LubeckaSCKL18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/JohnstonZLCT17,
author = {Travis Johnston and
Boyu Zhang and
Adam Liwo and
Silvia Crivelli and
Michela Taufer},
title = {\emph{In situ} data analytics and indexing of protein trajectories},
journal = {J. Comput. Chem.},
volume = {38},
number = {16},
pages = {1419--1430},
year = {2017},
url = {https://doi.org/10.1002/jcc.24729},
doi = {10.1002/JCC.24729},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/JohnstonZLCT17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/KarczynskaCKMJL17,
author = {Agnieszka S. Karczynska and
Cezary Czaplewski and
Pawel Krupa and
Magdalena A. Mozolewska and
Keehyoung Joo and
Jooyoung Lee and
Adam Liwo},
title = {Ergodicity and model quality in template-restrained canonical and
temperature/Hamiltonian replica exchange coarse-grained molecular
dynamics simulations of proteins},
journal = {J. Comput. Chem.},
volume = {38},
number = {31},
pages = {2730--2746},
year = {2017},
url = {https://doi.org/10.1002/jcc.25070},
doi = {10.1002/JCC.25070},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/KarczynskaCKMJL17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/KrupaHZOSL17,
author = {Pawel Krupa and
Anna Halabis and
Wioletta Zmudzinska and
Stanislaw Oldziej and
Harold A. Scheraga and
Adam Liwo},
title = {Maximum Likelihood Calibration of the {UNRES} Force Field for Simulation
of Protein Structure and Dynamics},
journal = {J. Chem. Inf. Model.},
volume = {57},
number = {9},
pages = {2364--2377},
year = {2017},
url = {https://doi.org/10.1021/acs.jcim.7b00254},
doi = {10.1021/ACS.JCIM.7B00254},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/KrupaHZOSL17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/KrupaMWYHSGLKSS16,
author = {Pawel Krupa and
Magdalena A. Mozolewska and
Marta Wisniewska and
Yanping Yin and
Yi He and
Adam K. Sieradzan and
Robert Ganzynkowicz and
Agnieszka G. Lipska and
Agnieszka S. Karczynska and
Magdalena Slusarz and
Rafal Slusarz and
Artur Gieldon and
Cezary Czaplewski and
Dawid Jagiela and
Bartlomiej Zaborowski and
Harold A. Scheraga and
Adam Liwo},
title = {Performance of protein-structure predictions with the physics-based
{UNRES} force field in {CASP11}},
journal = {Bioinform.},
volume = {32},
number = {21},
pages = {3270--3278},
year = {2016},
url = {https://doi.org/10.1093/bioinformatics/btw404},
doi = {10.1093/BIOINFORMATICS/BTW404},
timestamp = {Mon, 04 Jan 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/KrupaMWYHSGLKSS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/MozolewskaKZLLJ16,
author = {Magdalena A. Mozolewska and
Pawel Krupa and
Bartlomiej Zaborowski and
Adam Liwo and
Jooyoung Lee and
Keehyoung Joo and
Cezary Czaplewski},
title = {Use of Restraints from Consensus Fragments of Multiple Server Models
To Enhance Protein-Structure Prediction Capability of the {UNRES}
Force Field},
journal = {J. Chem. Inf. Model.},
volume = {56},
number = {11},
pages = {2263--2279},
year = {2016},
url = {https://doi.org/10.1021/acs.jcim.6b00189},
doi = {10.1021/ACS.JCIM.6B00189},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/MozolewskaKZLLJ16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/KrupaMJLCL15,
author = {Pawel Krupa and
Magdalena A. Mozolewska and
Keehyoung Joo and
Jooyoung Lee and
Cezary Czaplewski and
Adam Liwo},
title = {Prediction of Protein Structure by Template-Based Modeling Combined
with the {UNRES} Force Field},
journal = {J. Chem. Inf. Model.},
volume = {55},
number = {6},
pages = {1271--1281},
year = {2015},
url = {https://doi.org/10.1021/acs.jcim.5b00117},
doi = {10.1021/ACS.JCIM.5B00117},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/KrupaMJLCL15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/ZaborowskiJCHLZ15,
author = {Bartlomiej Zaborowski and
Dawid Jagiela and
Cezary Czaplewski and
Anna Halabis and
Agnieszka Lewandowska and
Wioletta Zmudzinska and
Stanislaw Oldziej and
Agnieszka S. Karczynska and
Christian Omieczynski and
Tomasz K. Wirecki and
Adam Liwo},
title = {A Maximum-Likelihood Approach to Force-Field Calibration},
journal = {J. Chem. Inf. Model.},
volume = {55},
number = {9},
pages = {2050--2070},
year = {2015},
url = {https://doi.org/10.1021/acs.jcim.5b00395},
doi = {10.1021/ACS.JCIM.5B00395},
timestamp = {Tue, 27 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/ZaborowskiJCHLZ15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/JohnstonZLCT15,
author = {Travis Johnston and
Boyu Zhang and
Adam Liwo and
Silvia Crivelli and
Michela Taufer},
title = {It-Situ Data Analysis of Protein Folding Trajectories},
journal = {CoRR},
volume = {abs/1510.08789},
year = {2015},
url = {http://arxiv.org/abs/1510.08789},
eprinttype = {arXiv},
eprint = {1510.08789},
timestamp = {Sat, 30 Nov 2019 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/JohnstonZLCT15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/KozlowskaLS10,
author = {Urszula Kozlowska and
Adam Liwo and
Harold A. Scheraga},
title = {Determination of side-chain-rotamer and side-chain and backbone virtual-bond-stretching
potentials of mean force from {AM1} energy surfaces of terminally-blocked
amino-acid residues, for coarse-grained simulations of protein structure
and folding. I. The method},
journal = {J. Comput. Chem.},
volume = {31},
number = {6},
pages = {1143--1153},
year = {2010},
url = {https://doi.org/10.1002/jcc.21399},
doi = {10.1002/JCC.21399},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/KozlowskaLS10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/KozlowskaMLS10,
author = {Urszula Kozlowska and
Gia G. Maisuradze and
Adam Liwo and
Harold A. Scheraga},
title = {Determination of side-chain-rotamer and side-chain and backbone virtual-bond-stretching
potentials of mean force from {AM1} energy surfaces of terminally-blocked
amino-acid residues, for coarse-grained simulations of protein structure
and folding. {II.} Results, comparison with statistical potentials,
and implementation in the {UNRES} force field},
journal = {J. Comput. Chem.},
volume = {31},
number = {6},
pages = {1154--1167},
year = {2010},
url = {https://doi.org/10.1002/jcc.21402},
doi = {10.1002/JCC.21402},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/KozlowskaMLS10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/MaciejczykSLS10,
author = {Maciej Maciejczyk and
Aleksandar Spasic and
Adam Liwo and
Harold A. Scheraga},
title = {Coarse-grained model of nucleic acid bases},
journal = {J. Comput. Chem.},
volume = {31},
number = {8},
pages = {1644--1655},
year = {2010},
url = {https://doi.org/10.1002/jcc.21448},
doi = {10.1002/JCC.21448},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/MaciejczykSLS10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibe/OldziejCLS10,
author = {Stanislaw Oldziej and
Cezary Czaplewski and
Adam Liwo and
Harold A. Scheraga},
title = {Towards Temperature Dependent Coarse-grained Potential of Side-chain
Interactions for Protein Folding Simulations},
booktitle = {10th {IEEE} International Conference on Bioinformatics and Bioengineering,
{BIBE} 2010, Philadelphia, Pennsylvania, USA, May 31-June 3 2010},
pages = {263--266},
publisher = {{IEEE} Computer Society},
year = {2010},
url = {https://doi.org/10.1109/BIBE.2010.50},
doi = {10.1109/BIBE.2010.50},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibe/OldziejCLS10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/HeXLS09,
author = {Yi He and
Yi Xiao and
Adam Liwo and
Harold A. Scheraga},
title = {Exploring the parameter space of the coarse-grained {UNRES} force
field by random search: Selecting a transferable medium-resolution
force field},
journal = {J. Comput. Chem.},
volume = {30},
number = {13},
pages = {2127--2135},
year = {2009},
url = {https://doi.org/10.1002/jcc.21215},
doi = {10.1002/JCC.21215},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/HeXLS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:reference/opt/RipollLS09,
author = {Daniel R. Ripoll and
Adam Liwo and
Harold A. Scheraga},
editor = {Christodoulos A. Floudas and
Panos M. Pardalos},
title = {Global Optimization in Protein Folding},
booktitle = {Encyclopedia of Optimization, Second Edition},
pages = {1392--1411},
publisher = {Springer},
year = {2009},
url = {https://doi.org/10.1007/978-0-387-74759-0\_246},
doi = {10.1007/978-0-387-74759-0\_246},
timestamp = {Fri, 02 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/reference/opt/RipollLS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/MakowskaMLC05,
author = {Joanna Makowska and
Mariusz Makowski and
Adam Liwo and
Lech Chmurzynski},
title = {Theoretical calculations of homoconjugation equilibrium constants
in systems modeling acid-base interactions in side chains of biomolecules
using the potential of mean force},
journal = {J. Comput. Chem.},
volume = {26},
number = {3},
pages = {235--242},
year = {2005},
url = {https://doi.org/10.1002/jcc.20166},
doi = {10.1002/JCC.20166},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/MakowskaMLC05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/ScheragaPLLCRWA02,
author = {Harold A. Scheraga and
Jaroslaw Pillardy and
Adam Liwo and
Jooyoung Lee and
Cezary Czaplewski and
Daniel R. Ripoll and
William J. Wedemeyer and
Yelena A. Arnautova},
title = {Evolution of physics-based methodology for exploring the conformational
energy landscape of proteins},
journal = {J. Comput. Chem.},
volume = {23},
number = {1},
pages = {28--34},
year = {2002},
url = {https://doi.org/10.1002/jcc.1154},
doi = {10.1002/JCC.1154},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/ScheragaPLLCRWA02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/KamierkiewiczLS02,
author = {Rajmund Kazmierkiewicz and
Adam Liwo and
Harold A. Scheraga},
title = {Energy-based reconstruction of a protein backbone from its -carbon
trace by a Monte-Carlo method},
journal = {J. Comput. Chem.},
volume = {23},
number = {7},
pages = {715--723},
year = {2002},
url = {https://doi.org/10.1002/jcc.10068},
doi = {10.1002/JCC.10068},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/KamierkiewiczLS02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/BobrowskiLOJO02,
author = {Maciej Bobrowski and
Adam Liwo and
Stanislaw Oldziej and
Danuta Jeziorek and
Tadeusz Ossowski},
title = {Ab initio study of the mechanism of singlet-dioxygen addition to hydroxyaromatic
compounds: Negative evidence for the involvement of peroxa and endoperoxide
intermediates},
journal = {J. Comput. Chem.},
volume = {23},
number = {11},
pages = {1076--1089},
year = {2002},
url = {https://doi.org/10.1002/jcc.10102},
doi = {10.1002/JCC.10102},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/BobrowskiLOJO02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/LiwoPCLRGRKWOS00,
author = {Adam Liwo and
Jaroslaw Pillardy and
Cezary Czaplewski and
Jooyoung Lee and
Daniel R. Ripoll and
Malgorzata Groth and
Sylwia Rodziewicz{-}Motowidlo and
Rajmund Kazmierkiewicz and
Ryszard J. Wawak and
Stanislaw Oldziej and
Harold A. Scheraga},
editor = {Ron Shamir and
Satoru Miyano and
Sorin Istrail and
Pavel A. Pevzner and
Michael S. Waterman},
title = {{UNRES:} a united-residue force field for energy-based prediction
of protein structure - orgin and significance of multibody terms},
booktitle = {Proceedings of the Fourth Annual International Conference on Computational
Molecular Biology, {RECOMB} 2000, Tokyo, Japan, April 8-11, 2000},
pages = {193--200},
publisher = {{ACM}},
year = {2000},
url = {https://doi.org/10.1145/332306.332544},
doi = {10.1145/332306.332544},
timestamp = {Mon, 13 May 2019 09:30:09 +0200},
biburl = {https://dblp.org/rec/conf/recomb/LiwoPCLRGRKWOS00.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jgo/ScheragaLPYLR99,
author = {Harold A. Scheraga and
Jooyoung Lee and
Jaroslaw Pillardy and
Yuan{-}Jie Ye and
Adam Liwo and
Daniel R. Ripoll},
title = {Surmounting the Multiple-Minima Problem in Protein Folding},
journal = {J. Glob. Optim.},
volume = {15},
number = {3},
pages = {235--260},
year = {1999},
url = {https://doi.org/10.1023/A:1008328218931},
doi = {10.1023/A:1008328218931},
timestamp = {Fri, 11 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jgo/ScheragaLPYLR99.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LiwoKCGOWRPS98,
author = {Adam Liwo and
Rajmund Kazmierkiewicz and
Cezary Czaplewski and
Malgorzata Groth and
Stanislaw Oldziej and
Ryszard J. Wawak and
Shelly Rackovsky and
Matthew R. Pincus and
Harold A. Scheraga},
title = {United-residue force field for off-lattice protein-structure simulations:
{III.} Origin of backbone hydrogen-bonding cooperativity in united-residue
potentials},
journal = {J. Comput. Chem.},
volume = {19},
number = {3},
pages = {259--276},
year = {1998},
url = {https://doi.org/10.1002/(SICI)1096-987X(199802)19:3\&\#60;259::AID-JCC1\&\#62;3.0.CO;2-S},
doi = {10.1002/(SICI)1096-987X(199802)19:3\&\#60;259::AID-JCC1\&\#62;3.0.CO;2-S},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/LiwoKCGOWRPS98.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/LiwoSOLMW97,
author = {Adam Liwo and
Piotr Skurski and
Stanislaw Oldziej and
Leszek Lankiewicz and
Joanna Malicka and
Wieslaw Wiczk},
title = {A New Approach to the Resolution of the Excitation-emission Spectra
of Multicomponent Systems},
journal = {Comput. Chem.},
volume = {21},
number = {2},
pages = {89--95},
year = {1997},
url = {https://doi.org/10.1016/S0097-8485(96)00021-6},
doi = {10.1016/S0097-8485(96)00021-6},
timestamp = {Mon, 18 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/candc/LiwoSOLMW97.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LiwoOPWRS97,
author = {Adam Liwo and
Stanislaw Oldziej and
Matthew R. Pincus and
Ryszard J. Wawak and
Shelly Rackovsky and
Harold A. Scheraga},
title = {A united-residue force field for off-lattice protein-structure simulations.
I. Functional forms and parameters of long-range side-chain interaction
potentials from protein crystal data},
journal = {J. Comput. Chem.},
volume = {18},
number = {7},
pages = {849--873},
year = {1997},
url = {https://doi.org/10.1002/(SICI)1096-987X(199705)18:7\&\#60;849::AID-JCC1\&\#62;3.0.CO;2-R},
doi = {10.1002/(SICI)1096-987X(199705)18:7\&\#60;849::AID-JCC1\&\#62;3.0.CO;2-R},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/LiwoOPWRS97.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LiwoPWROS97,
author = {Adam Liwo and
Matthew R. Pincus and
Ryszard J. Wawak and
Shelly Rackovsky and
Stanislaw Oldziej and
Harold A. Scheraga},
title = {A united-residue force field for off-lattice protein-structure simulations.
{II.} Parameterization of short-range interactions and determination
of weights of energy terms by Z-score optimization},
journal = {J. Comput. Chem.},
volume = {18},
number = {7},
pages = {874--887},
year = {1997},
url = {https://doi.org/10.1002/(SICI)1096-987X(199705)18:7\&\#60;874::AID-JCC2\&\#62;3.0.CO;2-O},
doi = {10.1002/(SICI)1096-987X(199705)18:7\&\#60;874::AID-JCC2\&\#62;3.0.CO;2-O},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/LiwoPWROS97.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LiwoDJNOW97,
author = {Adam Liwo and
Dariusz Dyl and
Danuta Jeziorek and
Magorzata Nowacka and
Tadeusz Ossowski and
Wiesaw Wonicki},
title = {{MCSCF} study of singlet oxygen addition to ethenol - a model of photooxidation
reactions of unsaturated and aromatic compounds bearing hydroxy groups},
journal = {J. Comput. Chem.},
volume = {18},
number = {13},
pages = {1668--1681},
year = {1997},
url = {https://doi.org/10.1002/(SICI)1096-987X(199710)18:13\&\#60;1668::AID-JCC9\&\#62;3.0.CO;2-P},
doi = {10.1002/(SICI)1096-987X(199710)18:13\&\#60;1668::AID-JCC9\&\#62;3.0.CO;2-P},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/LiwoDJNOW97.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/RipollPGSL95,
author = {Daniel R. Ripoll and
Marcia S. Pottle and
Kenneth D. Gibson and
Harold A. Scheraga and
Adam Liwo},
title = {Implementation of the {ECEPP} Algorithm, the Monte Carlo Minimization
Method, and the Electrostatically Driven Monte Carlo Method on the
Kendall Square Research {KSR1} Computer},
journal = {J. Comput. Chem.},
volume = {16},
number = {9},
pages = {1153--1163},
year = {1995},
url = {https://doi.org/10.1002/jcc.540160909},
doi = {10.1002/JCC.540160909},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/RipollPGSL95.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcamd/TarnowskaLSLGGT93,
author = {Monika Tarnowska and
Adam Liwo and
Mark D. Shenderovich and
Inta Liepina and
Alexander Golbraikh and
Zbigniew Grzonka and
Anna Tempczyk},
title = {A molecular mechanics study of the effect of substitution in position
1 on the conformational space of the oxytocin/vasopressin ring},
journal = {J. Comput. Aided Mol. Des.},
volume = {7},
number = {6},
pages = {699--720},
year = {1993},
url = {https://doi.org/10.1007/BF00125327},
doi = {10.1007/BF00125327},
timestamp = {Thu, 16 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcamd/TarnowskaLSLGGT93.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/LiwoTGT92,
author = {Adam Liwo and
Monika Tarnowska and
Zbigniew Grzonka and
Anna Tempczyk},
title = {Modified Free-Wilson Method for the Analysis of Biological Activity
Data},
journal = {Comput. Chem.},
volume = {16},
number = {1},
pages = {1--9},
year = {1992},
url = {https://doi.org/10.1016/0097-8485(92)85001-F},
doi = {10.1016/0097-8485(92)85001-F},
timestamp = {Mon, 18 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/candc/LiwoTGT92.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcamd/LiwoTG89a,
author = {Adam Liwo and
Anna Tempczyk and
Zbigniew Grzonka},
title = {Molecular mechanics calculations on deaminooxytocin and on deamino-arginine-vasopressin
and its analogues},
journal = {J. Comput. Aided Mol. Des.},
volume = {2},
number = {4},
pages = {281--309},
year = {1989},
url = {https://doi.org/10.1007/BF01532991},
doi = {10.1007/BF01532991},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcamd/LiwoTG89a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcamd/LiwoTG89,
author = {Adam Liwo and
Anna Tempczyk and
Zbigniew Grzonka},
title = {Theoretical studies of the mechanism of the action of the neurohypophyseal
hormones. I. Molecular electrostatic potential {(MEP)} and molecular
electrostatic field {(MEF)} maps of some vasopressin analogues},
journal = {J. Comput. Aided Mol. Des.},
volume = {3},
number = {3},
pages = {261--284},
year = {1989},
url = {https://doi.org/10.1007/BF01533072},
doi = {10.1007/BF01533072},
timestamp = {Thu, 16 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcamd/LiwoTG89.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/KostrowickiLS88,
author = {Jaroslaw Kostrowicki and
Adam Liwo and
Krzysztof Sokolowski},
title = {A comparative study on some methods for computing equilibrium concentrations},
journal = {Comput. Chem.},
volume = {12},
number = {4},
pages = {293--299},
year = {1988},
url = {https://doi.org/10.1016/0097-8485(88)80003-2},
doi = {10.1016/0097-8485(88)80003-2},
timestamp = {Mon, 18 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/candc/KostrowickiLS88.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/KostrowickiL87,
author = {Jaroslaw Kostrowicki and
Adam Liwo},
title = {A general method for the determination of the stoichiometry of unknown
species in multicomponent systems from physicochemical measurements},
journal = {Comput. Chem.},
volume = {11},
number = {3},
pages = {195--210},
year = {1987},
url = {https://doi.org/10.1016/0097-8485(87)80018-9},
doi = {10.1016/0097-8485(87)80018-9},
timestamp = {Mon, 18 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/candc/KostrowickiL87.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/KostrowickiL84,
author = {Jaroslaw Kostrowicki and
Adam Liwo},
title = {{DECFAM} - {A} new computer oriented algorithm for the determination
of equilibrium constants from potentionmetric and/or spectrophotometric
measurements - {I:} Basic principles of the method and calculations
of equilibrium concentrations},
journal = {Comput. Chem.},
volume = {8},
number = {2},
pages = {91--99},
year = {1984},
url = {https://doi.org/10.1016/0097-8485(84)85002-0/},
doi = {10.1016/0097-8485(84)85002-0/},
timestamp = {Mon, 18 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/candc/KostrowickiL84.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/KostrowickL84,
author = {Jaroslaw Kostrowicki and
Adam Liwo},
title = {{DECFAM} - {A} new computer oriented algorithm for the determination
of equilibrium constants from potentiometric and/or spectrophotometric
measurements - {II:} Methods based on analytical expressions},
journal = {Comput. Chem.},
volume = {8},
number = {2},
pages = {101--105},
year = {1984},
url = {https://doi.org/10.1016/0097-8485(84)85003-2},
doi = {10.1016/0097-8485(84)85003-2},
timestamp = {Mon, 18 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/candc/KostrowickL84.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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