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2-Methylene analogs of 1alpha-hydroxy-19-norvitamin D3: synthesis, biological activities and docking to the ligand binding domain of the rat vitamin D receptorThe Journal of Steroid Biochemistry and Molecular Biology 89-90, 13-7, 2004.
High throughput method for protein structure predictionNIC Workshop 2006: From Computational Biophysics to System Biology 34, 79-82, 2006.
T-Pile–a package for thermodynamic calculations for biomoleculesBioinformatics (Oxford, England) 23, 1840–1842, 2007.
Backbone building from quadrilaterals: a fast and accurate algorithm for protein backbone reconstruction from alpha carbon coordinatesJournal of Computational Chemistry 28, 1593–7, 2007.
Clustering as a supporting tool for structural drug designActa Poloniae Pharmaceutica. Drug Research 63, 436-8, 2006.
Fast and accurate methods for predicting short-range constraints in protein modelsJournal of Computer-Aided Molecular Design 22, 783–8, 2008.
Modeling Protein Structures and their Complexes with Sparse Experimental DataFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 49–52, 2012.
Efficient scheme for optimization of parallel tempering Monte Carlo methodJournal of Physics: Condensed Matter 19, , 2007.
Exploring protein energy landscapes with hierarchical clusteringInternational Journal of Quantum Chemistry 105, 826–830, 2005.
BioShell–a package of tools for structural biology computationsBioinformatics (Oxford, England) 22, 621–622, 2006.
Protein structure prediction by tempering spatial constraintsJournal of Computer-Aided Molecular Design 19, 603–8, 2005.
Template-free predictions of three-dimensional protein structures: From first principles to knowledge-based potentialsPrediction of Protein Structures, Functions, and Interactions 117-142, 2008.
Optimization of protein modelsWiley Interdisciplinary Reviews: Computational Molecular Science 2, 479–493, 2012.
A new combination of replica exchange Monte Carlo and histogram analysis for protein folding and thermodynamicsThe Journal of Chemical Physics 115, 1569–1574, 2001.
Wieloskalowe modelowanie białek (Multiscale protein modeling)Na pograniczu chemii i biologii (At the treshold of chemistry and biology) 17, 239-256, 2008.
BioShell Threader: protein homology detection based on sequence profiles and secondary structure profilesNucleic Acids Research 40, W257–62, 2012.
Comparison of three Monte Carlo conformational search strategies for a proteinlike homopolymer model: Folding thermodynamics and identification of low-energyJournal of Chemical Physics 113, 5065–5071, 2000.
A new approach to prediction of short-range conformational propensities in proteinsBioinformatics (Oxford, England) 21, 981–987, 2005.
Lattice representations of globular proteins: How good are they?Journal of Computational Chemistry 14, 1194-1202 , 1993.
De novo and inverse folding predictions of protein structure and dynamicsJournal of Computer-Aided Molecular Design 7, 397–438, 1993.
Simulations of the Folding Pathway of TIM-type a/ß Barrel ProteinsProceedings of the National Academy of Sciences of the United States of America 89, 2629–2633, 1992.