Found 195 publications by A. Kolinski
[195] Designing an Automatic Pipeline for Protein Structure Prediction |
Author(s): S. Kmiecik, M. Jamroz, A. Zwolinska, P. Gniewek, A. Kolinski
From Computational Biophysics to Systems Biology 2008, ed. U. H. E. Hansmann, J. H. Meinke, S. Mohanty, W. Nadler, O. Zimmermann 40:105-108, 2008
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[194] Contact prediction in protein modeling. Scoring, folding and refinement of coarse-grained models |
Author(s): D. Latek, A. Kolinski
(submitted), 2008
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[193] Template-free predictions of three-dimensional protein structures: From first principles to knowledge-based potentials |
Author(s): D. Gront, D. Latek, M. Kurcinski, A. Kolinski
Prediction of Protein Structures, Functions, and Interactions, Wiley (submitted), 2008
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[192] Utility library for structural bioinformatics |
Author(s): D. Gront, A. Kolinski
Bioinformatics 24(4):584-585, 2008
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[191] Uncharacterized DUF1574 Leptospira proteins are SGNH hydrolases |
Author(s): L. Knizewski, K. Steczkiewicz, K. Kuchta, L. Wyrwicz, D. Plewczynski, A. Kolinski, L. Rychlewski, K. Ginalski
Cell Cycle 7(4):542-544, 2008
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[190] AAindex: Amino Acid index database, progress report 2008 |
Author(s): S. Kawashima, Pokarowski, Pokarowska, A. Kolinski, T. Katayama, M. Kanehisa
Nucleic Acid Res. 36:D202-D205, 2008
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[189] Lattice polymers and protein models |
Author(s): A. Kolinski
Polymer Concepts in Protein Modelling, Cambridge (submitted), 2007
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[188] Fast and accurate methods for predicting short-range constraints in protein models |
Author(s): D. Gront, A. Kolinski
J. Comput. Aided Mol. Des. (DOI 10.1007/s10822-008-9213-8), 2008
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[187] Predicting the structure and functional mechanism of the outer membrane transporter and signal transducer FecA |
Author(s): T. Z. Sen, M. Kloster, A. Kloczkowski, A. Kolinski, J. M. Bujnicki, R. L. Jernigan
Biophysical Journal 94:2482-2491, 2008
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[186] Two-state cooperative folding in a minimal model with protein-like geometry |
Author(s): P. Pokarowski, M. Komorowski, K. Droste, A. Kolinski
submitted, 2007
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[185] Wieloskalowe modelowanie białek (Multiscale protein modeling) |
Author(s): D. Gront, D. Latek, M. Kurcinski, A. Kolinski
Na pograniczu chemii i biologii (At the threshold of chemistry and biology), H. Korniak, J. Barciszewski, Eds. Vol. 17 pp:239-256, 2008
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[184] Why proteins divide into domains? Insights from lattice model simulations |
Author(s): A. Rutkowska, A. Kolinski
Biomacromolecules 8 (11), 3519 -3524, 2007
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[183] Folding pathway of the B1 domain of protein G explored by a multiscale modeling |
Author(s): S. Kmiecik, A. Kolinski
Biophysical Journal 94: 726-736, 2008
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[182] Comparative modeling without implicit sequence alignments |
Author(s): A. Kolinski, D. Gront
Bioinformatics 23: 2522 - 2527, 2007
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[181] T-Pile - a package for thermodynamic calculations for biomolecules |
Author(s): D. Gront, A. Kolinski
Bioinformatics 23:1840-42, 2007
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[180] Characterization of Protein Folding Pathways by Reduced-space Modeling |
Author(s): S. Kmiecik, A. Kolinski
Proc. Natl. Acad. Sci. USA, 104(30):12330-5, 2007
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[179] Towards high-resolution protein structure prediction. Fast refinement of reduced models with all-atom force field |
Author(s): S. Kmiecik, D. Gront, A. Kolinski
BMC Structural Biology 7:43, 2007
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[178] Ideal amino acid exchange forms for approximating substitution matrices |
Author(s): P. Pokarowski, A. Kloczkowski, S. Nowakowski, M. Pokarowska, R. L. Jernigan, A. Kolinski
Proteins 69:379-393, 2007
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[177] Type II restriction endonuclease R.Eco29kI is a member of the GIY-YIG nuclease superfamily |
Author(s): E. M. Ibryashkina, M.V. Zakharova, E.S. Bogdanova, M.M. Den’mukhamedov, B.S. Melnik, A. Kolinski, D. Gront, M. Feder, A.S. Solonin, J.M. Bujnicki
BMC Structural Biology 7:48, 2007
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[176] Wieloskalowe modelowanie molekularne białek (Mutiscale molecular modeling of proteins) |
Author(s): A. Kolinski
Technical University of Warsaw Monthly 2:1-6, 2007
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[175] Hierarchical modeling of protein interactions |
Author(s): M. Kurcinski, A. Kolinski
J. Mol. Modeling 13:691–698, 2007
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[174] Efficient scheme for optimization of parallel tempering Monte Carlo method. |
Author(s): D. Gront, A. Kolinski
J. Phys. Condens. Matter 19: 036225, 2007
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[173] Steps towards flexible docking: Modeling of three-dimensional structures of the nuclear receptors bound with peptide ligands mimicking co-activators’ sequences |
Author(s): M. Kurcinski, A. Kolinski
J. Steroid Biochem. and Mol. Biol. 103:357-60, 2007
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[172] Protein structure prediction: combining de novo modeling with sparse experimental data |
Author(s): D. Latek, D. Ekonomiuk, A. Kolinski
J. Comput. Chem. 28(10) 1668 - 1676, 2007
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[171] Backbone Building from Quadrilaterals. A fast and accurate algorithm for protein backbone reconstruction from alpha carbon coordinates. |
Author(s): D. Gront, S. Kmiecik, A. Kolinski
J. Comput. Chemistry 28(9):1593-1597, 2007
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