Publications
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Author [ Title] Type Year Filters: Keyword is Monte Carlo Method [Clear All Filters]
Pages
Ab initio folding of proteins using restraints derived from evolutionary informationProteins Suppl. 3, 177–185, 1999.
Ab initio protein structure prediction on a genomic scale: application to the Mycoplasma genitalium genomeProceedings of the National Academy of Sciences of the United States of America 99, 5993–5998, 2002.
Assembly of protein structure from sparse experimental data: an efficient Monte Carlo modelProteins 32, 475–494, 1998.
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.
Characterization of protein-folding pathways by reduced-space modelingProceedings of the National Academy of Sciences of the United States of America 104, 12330–5, 2007.
Coarse-grained Monte Carlo simulations of mucus: structure, dynamics, and thermodynamicsBiophysical Journal 99, 3507–16, 2010.
The collapse transition of semiflexible polymers. A Monte Carlo simulation of a model systemThe Journal of Chemical Physics 85, 3585–3597, 1986.
Collapse transitions in protein-like lattice polymers: The effect of sequence patternsBiopolymers 42, 537–548, 1997.
Computer simulations of protein folding with a small number of distance restraintsActa Biochimica Polonica 49, 683–692, 2002.
De novo simulations of the folding thermodynamics of the GCN4 leucine zipperBiophysical Journal 77, 54–69, 1999.
Denatured proteins and early folding intermediates simulated in a reduced conformational spaceActa Biochimica Polonica 53, 131–143, 2006.
Discretized model of proteins. I. Monte Carlo study of cooperativity in homopolypeptidesJournal of Chemical Physics 97, 9412–9426, 1992.
Does a backwardly read protein sequence have a unique native state?Protein Engineering 9, 5–14, 1996.
Does reptation describe the dynamics of entangled, finite length polymer systems? A model simulationThe Journal of Chemical Physics 86, 1567–1585, 1987.
Dynamics and thermodynamics of beta-hairpin assembly: insights from various simulation techniquesBiophysical Journal 77, 2942–52, 1999.
Effect of double bonds on the dynamics of hydrocarbon chainsJournal of Chemical Physics 97, 1240–1249, 1992.
Fold assembly of small proteins using monte carlo simulations driven by restraints derived from multiple sequence alignmentsJournal of Molecular Biology 277, 419–448, 1998.
Folding simulations and computer redesign of protein A three-helix bundle motifsProteins 25, 286–299, 1996.
Generalized protein structure prediction based on combination of fold-recognition with de novo folding and evaluation of modelsProteins 61 Suppl. 7, 84–90, 2005.
A minimal physically realistic protein-like lattice model: designing an energy landscape that ensures all-or-none folding to a unique native stateBiophysical Journal 84, 1518–26, 2003.
Monte Carlo dynamics of a dense system of chain molecules constrained to lie near an interface. A simplified membrane modelThe Journal of Chemical Physics 93, 4440–4446, 1990.
Monte Carlo dynamics study of motions in cis-unsaturated hydrocarbon chainsThe Journal of Chemical Physics 95, 3826–3834, 1991.