Institute for Advanced Simulation (IAS)

Jülich Supercomputing Centre (JSC)

Olav Zimmermann's complete publication list

Journal Article Yildiz, C. B. ; Kundu, T. ; Gehrmann, J. ; Koesling, J. ; Ravaei, A. ; Wolff, P. ; Kraft, F. ; Maié, T. ; Jakovcevski, M. ; Pensold, D. ; Zimmermann, O. (Corresponding author)FZJ* ; Rossetti, G. (Corresponding author)FZJ* ; Costa, I. G. (Corresponding author) ; Zimmer-Bensch, G. (Corresponding author)
EphrinA5 regulates cell motility by modulating Snhg15/DNA triplex-dependent targeting of DNMT1 to the Ncam1 promoter
Epigenetics & chromatin 16(1), 42 (2023) [10.1186/s13072-023-00516-4]2023 OpenAccess Files BibTeX | EndNote: XML, Text | RIS

Journal Article de Bruyn, E. (First author)FZJ* ; Dorn, A.FZJ* ; Zimmermann, O. (Corresponding author)FZJ* ; Rossetti, G. (Corresponding author)FZJ*
SPEADI: Accelerated Analysis of IDP-Ion Interactions from MD-Trajectories
Biology 12(4), 581 - (2023) [10.3390/biology12040581] special issue: "Intrinsically Disordered Proteins Interactions with Their Molecular Environment at the Crossroad between Theory and Experiments"2023 Files Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Journal Article Nutschel, C.FZJ* ; Fulton, A. ; Zimmermann, O.FZJ* ; Schwaneberg, U. ; Jaeger, K.-E.FZJ* ; Gohlke, H. (Corresponding author)FZJ*
Systematically scrutinizing the impact of substitution sites on thermostability and detergent tolerance for Bacillus subtilis lipase A
Journal of chemical information and modeling 60(3), 1568-1584 (2020) [10.1021/acs.jcim.9b00954]2020 Embargoed OpenAccess Files Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Contribution to a book Zimmermann, O. (Corresponding author)FZJ*
Backbone Dihedral Angle Prediction
2017Prediction of Protein Secondary Structure / Zhou, Yaoqi (Editor) ; New York, NY : Springer New York, 2017, Chapter 7 ; ISSN: 1064-3745=1940-6029 ; ISBN: 978-1-4939-6404-8=978-1-4939-6406-2 ; doi:10.1007/978-1-4939-6406-2 New York, NY : Springer New York, Methods in Molecular Biology 1484, 65 - 82 (2017) [10.1007/978-1-4939-6406-2_7]2017 BibTeX | EndNote: XML, Text | RIS

Journal Article Zimmermann, O. (Corresponding author)FZJ*
Simulation Laboratories - Supercomputer-Support und Forschung für Communities
Systembiologie.de 10(April 2016), 56-59 (2016)2016 Fulltext BibTeX | EndNote: XML, Text | RIS

Contribution to a conference proceedings/Contribution to a book Kondrat, S.FZJ* ; Zimmermann, O.FZJ* ; von Lieres, E. (Corresponding author)FZJ*
Mehrskalenmodellierung von Reaktions-Diffusions Prozessen in lebenden Systemen
201618. Heiligenstädter Kolloquium, HeiligenstadtHeiligenstadt, Germany, 19 Sep 2016 - 21 Sep 20162016-09-192016-09-21 Beckmann, D.; Kaufhold, S. 57 - 68 (2016)2016 BibTeX | EndNote: XML, Text | RIS

Journal Article Kondrat, S. (Corresponding author)FZJ* ; Zimmermann, O.FZJ* ; Wiechert, W.FZJ* ; von Lieres, E.FZJ*
Discrete-continuous reaction-diffusion model with mobile point-like sources and sinks
The European physical journal / E 39(1), 11 (2016) [10.1140/epje/i2016-16011-0]2016 Files BibTeX | EndNote: XML, Text | RIS

Journal Article Holl, S.FZJ* ; Mohammed, Y. ; Zimmermann, O.FZJ* ; Palmblad, M. (Corresponding author)Extern*
Scientific Workflow Optimization for Improved Peptide and Protein Identification
BMC bioinformatics 16, 284 (2015) [10.1186/s12859-015-0714-x]2015 Files Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Journal Article Kondrat, S. (Corresponding author)FZJ* ; Zimmermann, O.FZJ* ; Wiechert, W.FZJ* ; Lieres, E. v.
The effect of composition on Diffusion of macromolecules in a crowded environment
Physical biology 12(4), 046003 - (2015) [10.1088/1478-3975/12/4/046003]2015 Files BibTeX | EndNote: XML, Text | RIS

Journal Article Walsh, I. ; Giollo, M. ; Di Domenico, T. ; Ferrari, C. ; Zimmermann, O.FZJ* ; Tosatto, S. C. E. (Corresponding Author)
Comprehensive large-scale assessment of intrinsic protein disorder
Bioinformatics 31(2), 201-208 (2015) [10.1093/bioinformatics/btu625]2015 Files Fulltext BibTeX | EndNote: XML, Text | RIS

Journal Article Zimmermann, O.FZJ* ; Meinke, J.FZJ* ; Mohanty, S.FZJ*
CECAM Tutorial: Atomistic Monte Carlo Simulations of Bio-Molecular Systems
Innovatives Supercomputing in Deutschland 12(2), 90 (2014)2014 Files Fulltext Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Journal Article Holl, S. (Corresponding author)FZJ* ; Zimmermann, O.FZJ* ; Palmblad, M. ; Mohammed, Y. ; Hofmann-Apitius, M.
A New Optimization Phase for Scientific Workflow Management Systems
Future generation computer systems 36, 352-362 (2014) [10.1016/j.future.2013.09.005]2014 Files BibTeX | EndNote: XML, Text | RIS

Contribution to a conference proceedings Holl, S. (Corresponding author)FZJ* ; Garijo, D. ; Belhajjame, K. ; Zimmermann, O.FZJ* ; De Giovanni, R. ; Obst, M. ; Goble, C.
On specifying and sharing scientific workflow optimization results using research objects
2013Proceedings of the 8th Workshop on Workflows in Support of Large-Scale Science - WORKS '13 - ACM Press New York, New York, USA, 2013. - ISBN 9781450325028 - doi:10.1145/2534248.2534251
8th Workshop on Workflows in Support of Large-Scale Science, WORKS 2013, DenverDenver, Colorado, 17 Nov 2013 - 17 Nov 20132013-11-172013-11-17 ACM Press New York, New York, USA 28-37 (2013) [10.1145/2534248.2534251]2013 BibTeX | EndNote: XML, Text | RIS

Journal Article Mohanty, S. (Corresponding author)FZJ* ; Meinke, J.FZJ* ; Zimmermann, O.FZJ*
Folding of Top7 in unbiased all-atom Monte Carlo simulations
Proteins 81(8), 1446 - 1456 (2013) [10.1002/prot.24295]2013 Files BibTeX | EndNote: XML, Text | RIS

Contribution to a conference proceedings Holl, S. (Corresponding Author)FZJ* ; Zimmermann, O.FZJ* ; Hofmann-Apitius, M.
A new optimization phase for scientific workflow management systems
20122012 IEEE 8th International Conference on E-Science : [Proceedings] - IEEE, 2012.
2012 IEEE 8th International Conference on E-Science (e-Science), ChicagoChicago, IL, 8 Oct 2012 - 12 Oct 20122012-10-082012-10-12 IEEE 1 - 8 (2012) [10.1109/eScience.2012.6404479]2012 BibTeX | EndNote: XML, Text | RIS

Contribution to a conference proceedings/Contribution to a book Holl, S. (Corresponding author)FZJ* ; Zimmermann, O.FZJ* ; Demuth, B.FZJ* ; Schuller, B.FZJ* ; Hofmann-Apitius, M.
Secure Multi-Level Parallel Execution of Scientific Workflows on HPC Grid Resources by Combining Taverna and UNICORE Services
2012UNICORE Summit 2012, Proceedings, 30 - 31 May 2012 | Dresden, Germany
UNICORE Summit 2012, DresdenDresden, Germany, 30 May 2012 - 31 May 20122012-05-302012-05-31 Jülich : Forschungszentrum Jülich, Schriften des Forschungszentrums Jülich, IAS Series 15, 8 p. (2012)2012 BibTeX | EndNote: XML, Text | RIS

Contribution to a conference proceedings Zimmermann, O. (Corresponding author)FZJ* ; von Lieres, E.FZJ*
Mehrskalige Simulation räumlicher Inhomogenitäten in biochemischen Netzwerken
201216. Heiligenstädter Kolloquium Technische Systeme für die Lebenswissenschaften, HeiligenstadtHeiligenstadt, Germany, 24 Sep 2012 - 26 Sep 20122012-09-242012-09-26 2 p. (2012)2012 BibTeX | EndNote: XML, Text | RIS

Report Gibbon, P.FZJ* ; Arnold, L.FZJ* ; Brömmel, D.FZJ* ; Chihaia, V.FZJ* ; Grießbach, S.FZJ* ; Halver, R.FZJ* ; Hoffmann, L.FZJ* ; Karmakar, A.FZJ* ; Meinke, J.FZJ* ; Mohanty, S.FZJ* ; Müller, T.FZJ* ; Schiller, A.FZJ* ; Sutmann, G.FZJ* ; Zimmermann, O.FZJ*
High-Level Support Initiative of the JSC Simulation Laboratories 2011
Jülich : Forschungszentrum Jülich GmbH Zentralbibliothek, Verlag, Berichte des Forschungszentrums Jülich 30 p. (2012)2012 Files Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Contribution to a conference proceedings/Contribution to a book Holl, S.FZJ* ; Zimmermann, O.FZJ* ; Hofmann-Apitius, M.
A UNICORE plugin for HPC-enabled scientific workflows in Taverna 2.2
2011Proceedings of 7th IEEE 2011 World Congress on Services (SERVICES 2011), Washington, DC USA, July 04-July 09, IEEE, CS Digital Library, 2011, 978-0-7695-4461-8, S. 220 - 223 [10.1109/SERVICES.2011.46] BibTeX | EndNote: XML, Text | RIS

Contribution to a conference proceedings/Contribution to a book Meinke, J. H.FZJ* ; Mohanty, S.FZJ* ; Zimmermann, O.FZJ*
Protein Folding an Structure Prediction at the Simulation Laboratory Biology
2010NIC Symposium 2010, / ed.: G. Münster, D. Wolf, M. Kremer, Jülich, Forschungszentrum Jülich, IAS Series Vol. 3. - 978-3-89336-606-4. - S. 87 - 94 BibTeX | EndNote: XML, Text | RIS

Journal Article Meinke, J. H.FZJ* ; Mohanty, S.FZJ* ; Nadler, W.FZJ* ; Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Computer Simulation of Proteins - Thermodynamics and Structure Predictions
The European physical journal / D 51, 33 - 40 (2009) [10.1140/epjd/e2008-00086-2]2009 BibTeX | EndNote: XML, Text | RIS

Journal Article Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Understanding protein folding: Small proteins in silico
Biochimica et biophysica acta / Proteins and proteomics 1784, 252 - 258 (2008) [10.1016/j.bbapap.2007.10.010]2008 pmc Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Journal Article Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
LOCUSTRA: Accurate Prediction of Local Protein Structure Using a Two-Layer Support Vector Machine Approach
Journal of Chemical Information and Modeling 48, 1903 - 1908 (2008) [10.1021/ci800178a]2008 BibTeX | EndNote: XML, Text | RIS

Journal Article Mohanty, S.FZJ* ; Meinke, J.FZJ* ; Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Simulation of Top7-CFr: a transient helix extension guides folding
Proceedings of the National Academy of Sciences of the United States of America 105, 8004 - 8007 (2008) [10.1073/pnas.0708411105]2008 pmc Fulltext by Pubmed Central BibTeX | EndNote: XML, Text | RIS

Journal Article Zimmermann, O.FZJ* ; Wang, L.FZJ* ; Hansmann, U. H. E.FZJ*
BETTY: Prediction of beta-strand type from sequence
In silico biology 7, 0037 (2007)2007 BibTeX | EndNote: XML, Text | RIS

Contribution to a conference proceedings/Contribution to a book Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Dihedral Angle Patterns in Coil Regions of Protein Structures
2007From Computational Biophysics to Systems Biology (CBSB07). - Jülich, 2007. - (NIC Series ; 36). - S. 301 - 303 BibTeX | EndNote: XML, Text | RIS

Contribution to a book Fredel, F.FZJ* ; Meinke, J.FZJ* ; Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Semiautomatic Workflow for Fold Recognition - Results from the CASP 2006 Competition
2007NIC Series Volume 36: From Computational Biophysics to Systems Biology (CBSB07), Ulrich H. E. Hansmann, Jan Meinke, Sandipan Mohanty, Olav Zimmermann (Editors), chapter 20, p. 113-116, Jülich : John von Neumann Institute for Computing, 2007. ISBN: 978-3-9810843-2-0 Jülich : John von Neumann Institute for Computing, NIC series 36, 113-116 (2007)2007 Files Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Journal Article Neuhaus, T.FZJ* ; Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Ring polymer simulations with global radius of curvature
Physical review / E 75(5), 051803 (2007) [10.1103/PhysRevE.75.051803]2007 Files Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Contribution to a book Neuhaus, T.FZJ* ; Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Simulation of Thick Polymers
2006NIC Series Volume 34 : NIC Workshop: From Computational Biophysics to Systems Biology 2006, Ulrich H.E. Hansmann, Jan Meinke, Sandipan Mohanty, Olav Zimmermann (Editors), chapter 37, Jülich : John von Neumann Institute for Computing, pp. 177-180. ISBN: 3-9810843-0-6 Jülich : John von Neumann Institute for Computing, NIC series 34, (2006)2006 Files Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Contribution to a book Wang, L.FZJ* ; Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Prediction of Parallel and Antiparallel Beta Sheets Based on Sequence Profiles Using Support Vector Machines
2006NIC Series Volume 34 : NIC Workshop: From Computational Biophysics to Systems Biology 2006, Ulrich H.E. Hansmann, Jan Meinke, Sandipan Mohanty, Olav Zimmermann (Editors), chapter 43, Jülich : John von Neumann Institute for Computing, pp. 201-204. ISBN: 3-9810843-0-6 Jülich : John von Neumann Institute for Computing, NIC series 34, 224 p. (2006)2006 Files Fulltext by OpenAccess repository BibTeX | EndNote: XML, Text | RIS

Journal Article Zimmermann, O.FZJ* ; Hansmann, U. H. E.FZJ*
Support Vector Machines for Prediction of Dihedral Angle Regions
Bioinformatics 22, 3009 (2006) [10.1093/bioinformatics/btl489]2006 BibTeX | EndNote: XML, Text | RIS

Last Modified: 06.05.2022

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