BioShell Threader: protein homology detection based on sequence profiles and secondary structure profilesNucleic Acids Research 40, W257–62, 2012.
Coarse-grained Protein Modeling: Dynamics, Folding Pathways and Mechanical UnfoldingFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 83–90, 2012.
Elastic network normal modes provide a basis for protein structure refinementThe Journal of Chemical Physics 136, 195101, 2012.
Fast learning optimized prediction methodology (FLOPRED) for protein secondary structure predictionJournal of Molecular Modeling 18, 4275–89, 2012.
From coarse-grained to atomic-level characterization of protein dynamics: transition state for the folding of B domain of protein AThe Journal of Physical Chemistry B 116, 7026–32, 2012.
How noise in force fields can affect the structural refinement of protein models?Proteins 80, 335–341, 2012.
Modeling Protein Structures and their Complexes with Sparse Experimental DataFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 49–52, 2012.
Modelowanie Molekularne Białek Błonowych (Molecular Modeling of Membrane Proteins)Na pograniczu chemii i biologii (At the Treshold of Chemistry and Biology) vol. XXVIII, H. Koroniak, J. Barciszewski eds, Wydawnictwo Naukowe UAM, Poznań 223-238, 2012.
Multiscale Approach to Thermodynamics and Dynamics of a beta-Hairpin FoldingFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 213–216, 2012.
Optimization of profile-to-profile alignment parameters for one-dimensional threadingJournal of Computational Biology 19, 879–86, 2012.
Optimization of protein modelsWiley Interdisciplinary Reviews: Computational Molecular Science 2, 479–493, 2012.
Prediction of Experimental Phi Values in Protein Folding by Simulation with Knowledge-based Potentials: B Domain of Protein AFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 79–82, 2012.
Protein Structure Prediction Using CABS – A Consensus ApproachFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 29–32, 2012.
Analysis and optimization of interactions between peptides mimicking the GD2 ganglioside and the monoclonal antibody 14G2aInternational Journal of Molecular Medicine 28, 47–57, 2011.
CABS-NMR–De novo tool for rapid global fold determination from chemical shifts, residual dipolar couplings and sparse methyl-methyl NOEsJournal of c\Computational Chemistry 32, 536–44, 2011.
Computational study of binding of epothilone A to β-tubulinActa Biochimica Polonica 58, 255–60, 2011.
Human telomerase model shows the role of the TEN domain in advancing the double helix for the next polymerization stepProceedings of the National Academy of Sciences of the United States of America 108, 9443–8, 2011.