TY - GEN A1 - Baumann, Wolfgang A1 - Busch, Hubert A1 - Gottschewski, Jürgen A1 - Steinke, Thomas A1 - Stüben, Hinnerk T1 - Berliner Landeshöchstleistungsrechner Parallelrechner Cray T3D/T3E: Betrieb, Nutzung, Projekte, Perspektiven für den Ausbau N2 - Seit fast drei Jahren betreibt das Konrad-Zuse-Zentrum für Informationstechnik Berlin (ZIB) Parallelrechner der höchsten Leistungsklasse im normalen Rechenzentrumsbetrieb. Bereits im Mai 1995 hat das ZIB über seine Erfahrungen mit dem damals leistungsstärksten Parallelrechner Deutschlands berichtet. Das Gesamtkonzept des ZIB sieht weiterhin einen Höchstleistungsrechner als unabdingbaren Bestandteil des High Performance Scientific Computing (HPSC) im ZIB vor. Der vorliegende Bericht beschreibt die aktuelle Konfiguration, Betriebserfahrungen und die Rechnernutzung sowie typische Rechenleistungen, die für einzelne Anwendungsprogramme erzielt wurden. Beschreibungen der Forschungsgebiete mit den Forschungsgruppen, die den Rechner nutzen und die Anforderungen an den Rechnerausbau, die sich aus deren Arbeiten herleiten, beschließen den Bericht. T3 - ZIB-Report - TR-97-08 Y1 - 1997 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-5504 ER - TY - CHAP A1 - Steinke, Thomas A1 - Peter, Kathrin A1 - Borchert, Sebastian T1 - Efficiency Considerations of Cauchy Reed-Solomon Implementations on Accelerator and Multi-Core Platforms T2 - Symposium on Application Accelerators in High Performance Computing (SAAHPC) Y1 - 2010 UR - http://saahpc.ncsa.illinois.edu/10/papers/paper_12.pdf CY - Knoxville, USA ER - TY - GEN A1 - Birkenheuer, Georg A1 - Blunk, Dirk A1 - Breuers, Sebastian A1 - Brinkmann, André A1 - d. Santos Vieira, I. A1 - Fels, Gregor A1 - Gesing, Sandra A1 - Grunzke, Richard A1 - Herres-Pawlis, Sonja A1 - Kohlbacher, Oliver A1 - Kruber, Nico A1 - Krüger, Jens A1 - Lang, U. A1 - Packschies, Lars A1 - Müller-Pfefferkorn, Ralph A1 - Schäfer, Patrick A1 - Schmalz, Hans-Günther A1 - Steinke, Thomas A1 - Warzecha, Klaus Dieter A1 - Wewior, Martin T1 - MoSGrid – A Molecular Simulation Grid as a new tool in Computational Chemistry, Biology and Material Science T2 - 6. German Conference on Chemoinformatics Y1 - 2010 N1 - Free software session and poster ER - TY - CHAP A1 - Krüger, Jens A1 - Birkenheuer, Georg A1 - Blunk, Dirk A1 - Breuers, Sebastian A1 - Brinkmann, André A1 - Fels, Gregor A1 - Gesing, Sandra A1 - Grunzke, Richard A1 - Herres-Pawlis, Sonja A1 - Kohlbacher, Oliver A1 - Kruber, Nico A1 - Lang, U. A1 - Packschies, Lars A1 - Müller-Pfefferkorn, Ralph A1 - Schäfer, Patrick A1 - Schmalz, Hans-Günther A1 - Steinke, Thomas A1 - Warzecha, Klaus Dieter A1 - Wewior, Martin T1 - Molecular Simulation Grid T2 - 6. German Conference on Chemoinformatics Y1 - 2010 PB - Gesellschaft Deutscher Chemiker (GDCh) ER - TY - JOUR A1 - May, Patrick A1 - Kreuchwig, A. A1 - Steinke, Thomas A1 - Koch, Ina T1 - PTGL: a database for secondary structure-based protein topologies JF - Nucleic Acids Res. Y1 - 2010 VL - 38 SP - D326 EP - 330 ER - TY - CHAP A1 - Dickmann, Frank A1 - Kaspar, Mathias A1 - Löhnhardt, Benjamin A1 - Kepper, Nick A1 - Viezens, Fred A1 - Hertel, Frank A1 - Lesnussa, Michael A1 - Mohammed, Yassene A1 - Thiel, Andreas A1 - Steinke, Thomas A1 - Bernarding, Johannes A1 - Krefting, Dagmar A1 - Knoch, Tobias A1 - Sax, Ulrich T1 - Visualization in Health Grid Environments: A Novel Service and Business Approach T2 - GECON Y1 - 2009 U6 - https://doi.org/10.1007/978-3-642-03864-8_12 VL - 5745 SP - 150 EP - 159 PB - Springer ER - TY - JOUR A1 - Bauer, Raphael A1 - Rother, Kristian A1 - Moor, Peter A1 - Reinert, Knut A1 - Steinke, Thomas A1 - Bujnicki, Janusz A1 - Preissner, Robert T1 - Fast Structural Alignment of Biomolecules Using a Hash Table, N-Grams and String Descriptors JF - Algorithms Y1 - 2009 U6 - https://doi.org/10.3390/a2020692 VL - 2 IS - 2 SP - 692 EP - 709 ER - TY - CHAP A1 - May, Patrick A1 - Klau, Gunnar A1 - Bauer, Markus A1 - Steinke, Thomas ED - Dubitzky, W. T1 - Accelerated microRNA-Precursor Detection Using the Smith-Waterman Algorithm on FPGAs T2 - GCCB Y1 - 2007 VL - 4360 SP - 19 EP - 32 PB - Springer ER - TY - JOUR A1 - Meyer, Michael A1 - Steinke, Thomas A1 - Sühnel, Jürgen T1 - Density functional study of isoguanine tetrad and pentad sandwich complexes with alkali metal ions JF - Journal of Molecular Modeling Y1 - 2007 UR - http://dx.doi.org/10.1007/s00894-006-0148-5 VL - 13 IS - 2 SP - 335 EP - 345 PB - Springer Berlin / Heidelberg ER - TY - CHAP A1 - Kottha, Samatha A1 - Peter, Kathrin A1 - Steinke, Thomas A1 - Bart, Julian A1 - Falkner, Jürgen A1 - Weisbecker, Anette A1 - Viezens, Fred A1 - Mohammed, Yassene A1 - Sax, Ulrich A1 - Hoheisel, Andreas A1 - Ernst, Thilo A1 - Sommerfeld, Dietmar A1 - Krefting, Dagmar A1 - Vossberg, Michael T1 - Medical Image Processing in MediGRID T2 - German E-Science Conference Y1 - 2007 UR - http://edoc.mpg.de/316613 PB - Max Planck Digital Library CY - Baden-Baden ER - TY - CHAP A1 - Stahlberg, Eric A1 - Babst, Michael A1 - Popig, Daryl A1 - Steinke, Thomas T1 - Molecular Dynamics with FPGAs: A Portable API Molecular Simulations with Hardware Accelerators: A Portable Interface Definition for FPGA Supported Acceleration T2 - International Supercomputing Conference 2007 (ISC 2007) Y1 - 2007 CY - Dresden ER - TY - CHAP A1 - Stahlberg, Eric A1 - Popig, Daryl A1 - Ryle, Debie A1 - Babst, Michael A1 - Anderson, Mohammed A1 - Steinke, Thomas T1 - Molecular Simulations with Hardware Accelerators T2 - Reconfigurable Systems Summer Institute 2007 (RSSI 2007) Y1 - 2007 CY - National Center for Supercomputing Applications, Urbana/Illinois ER - TY - CHAP A1 - May, Patrick A1 - Krause, F. A1 - Ehrlich, C. A1 - Maaskola, J. A1 - Steinke, Thomas T1 - ZIB threading pipeline - A webservice-based, distributed structure prediction workflow. T2 - Proceedings of the German Conference on Bioinformatics (GCB) Y1 - 2005 SP - 125 EP - 126 ER - TY - CHAP A1 - Michalsky, E. A1 - Goede, A. A1 - Preissner, Robert A1 - May, Patrick A1 - Steinke, Thomas T1 - A distributed pipeline for structure prediction T2 - CASP6 Abstract Book, Sixth Meeting on the Critical Assessment of Techniques for Protein Structure Prediction, Gaeta, Italy Y1 - 2004 SP - 112 EP - 114 ER - TY - CHAP A1 - Rother, Kristian A1 - Müller, Heiko A1 - Trißl, Silke A1 - Koch, Ina A1 - Steinke, Thomas A1 - Preissner, Robert A1 - Frömmel, Cornelius A1 - Leser, Ulf ED - Rahm, Erhard T1 - Columba: Multidimensional Data Integration of Protein Annotations T2 - Data Integration in the Life Sciences, First International Workshop, DILS 2004, Leipzig, Germany, March 25-26 Y1 - 2004 U6 - https://doi.org/10.1007/978-3-540-24745-6_11 VL - 2994 SP - 156 EP - 171 PB - Springer Berlin / Heidelberg ER - TY - JOUR A1 - Trißl, Silke A1 - Rother, Kristian A1 - Müller, Heiko A1 - Steinke, Thomas A1 - Koch, Ina A1 - Preissner, Robert A1 - Frömmel, Cornelius A1 - Leser, Ulf T1 - Columba: an integrated database of proteins, structures, and annotations JF - BMC Bioinformatics Y1 - 2005 U6 - https://doi.org/10.1186/1471-2105-6-81 VL - 6 SP - 81 EP - 92 ER - TY - CHAP A1 - May, Patrick A1 - Kallies, B. A1 - Steinke, Thomas T1 - THESEUS – a parallel threading core for highthroughput protein structure prediction T2 - Proceedings of the 7th Congress of the World Association of Theoretically Orientes Chemists (WARTOC) Y1 - 2005 ER - TY - CHAP A1 - May, Patrick A1 - Steinke, Thomas A1 - Meyer, Michael T1 - THESEUS: A Parallel Threading Core T2 - Procs. 12th Internat. Conf. on Intelligent Systems for Mol. Bio. (ISMB) and 3rd European Conf. on Comp. Bio. (ECCB), Glasgow Y1 - 2004 SP - 199 ER - TY - CHAP A1 - Rother, Kristian A1 - Trissl, S. A1 - Müller, H. A1 - May, Patrick A1 - Heek, R. A1 - Preissner, Robert A1 - Steinke, Thomas A1 - Koch, Ina A1 - Leser, Ulf A1 - Frömmel, Cornelius ED - Christophe, C. ED - Lenhof, H.-P. ED - Sagot, M.-F. T1 - Columba - A Database of Annotations of Protein Structure T2 - ECCB - Proceedings of the European Conference on Computational Biology in conjunction with the French National Conference on Bioinformatics Y1 - 2003 SP - 109 EP - 110 ER - TY - CHAP A1 - May, Patrick A1 - Ehrlich, Hans-Christian A1 - Steinke, Thomas ED - Lehner, Wolfgang ED - Meyer, Norbert ED - Streit, Achim ED - Stewart, Craig T1 - ZIB Structure Prediction Pipeline: Composing a Complex Biological Workflow Through Web Services T2 - Euro-Par 2006 Workshops Y1 - 2006 UR - http://dx.doi.org/10.1007/11823285_121 VL - 4375 SP - 1148 EP - 1158 PB - Springer ER -