TY - GEN A1 - Benkrid, Khaled A1 - El-Araby, Esam A1 - Huang, Miaoqing A1 - Sano, Kentaro A1 - Steinke, Thomas T1 - High-Performance Reconfigurable Computing - editorial for Special Issue of the International Journal of Reconfigurable Computing T2 - International Journal of Reconfigurable Computing Y1 - 2012 U6 - https://doi.org/10.1155/2012/104963 VL - 2012 SP - 1 EP - 2 ER - TY - JOUR A1 - Krüger, Jens A1 - Grunzke, Richard A1 - Gesing, Sandra A1 - Breuers, Sebastian A1 - Brinkmann, André A1 - de la Garza, Luis A1 - Kohlbacher, Oliver A1 - Kruse, Martin A1 - Nagel, Wolfgang A1 - Packschies, Lars A1 - Müller-Pfefferkorn, Ralph A1 - Schäfer, Patrick A1 - Schärfe, Charlotta A1 - Steinke, Thomas A1 - Schlemmer, Tobias A1 - Warzecha, Klaus Dieter A1 - Zink, Andreas A1 - Herres-Pawlis, Sonja T1 - The MoSGrid Science Gateway - A Complete Solution for Molecular Simulations JF - Journal of Chemical Theory and Computation Y1 - 2014 U6 - https://doi.org/10.1021/ct500159h VL - 10 IS - 6 SP - 2232 EP - 2245 ER - TY - CHAP A1 - Dreßler, Sebastian A1 - Steinke, Thomas T1 - An Automated Approach for Estimating the Memory Footprint of Non-linear Data Objects T2 - Euro-Par 2013: Parallel Processing Workshops Y1 - 2014 U6 - https://doi.org/10.1007/978-3-642-54420-0_25 VL - 8374 SP - 249 EP - 258 ER - TY - CHAP A1 - Weinhold, Carsten A1 - Lackorzynski, Adam A1 - Bierbaum, Jan A1 - Küttler, Martin A1 - Planeta, Maksym A1 - Härtig, Hermann A1 - Shiloh, Amnon A1 - Levy, Ely A1 - Ben-Nun, Tal A1 - Barak, Amnon A1 - Steinke, Thomas A1 - Schütt, Thorsten A1 - Fajerski, Jan A1 - Reinefeld, Alexander A1 - Lieber, Matthias A1 - Nagel, Wolfgang T1 - FFMK: A Fast and Fault-tolerant Microkernel-based System for Exascale Computing T2 - SPPEXA Symposium 2016 Y1 - 2016 U6 - https://doi.org/10.1007/978-3-319-40528-5_18 ER - TY - CHAP A1 - Fajerski, J. A1 - Noack, Matthias A1 - Reinefeld, Alexander A1 - Schintke, Florian A1 - Schütt, Thorsten A1 - Steinke, Thomas T1 - Fast In-Memory Checkpointing with POSIX API for Legacy Exascale-Applications T2 - SPPEXA Symposium 2016 Y1 - 2016 U6 - https://doi.org/10.1007/978-3-319-40528-5_19 ER - TY - JOUR A1 - Heinze, Rieke A1 - Dipankar, Anurag A1 - Henken, Cintia Carbajal A1 - Moseley, Christopher A1 - Sourdeval, Odran A1 - Trömel, Silke A1 - Xie, Xinxin A1 - Adamidis, Panos A1 - Ament, Felix A1 - Baars, Holger A1 - Barthlott, Christian A1 - Behrendt, Andreas A1 - Blahak, Ulrich A1 - Bley, Sebastian A1 - Brdar, Slavko A1 - Brueck, Matthias A1 - Crewell, Susanne A1 - Deneke, Hartwig A1 - Di Girolamo, Paolo A1 - Evaristo, Raquel A1 - Fischer, Jürgen A1 - Frank, Christopher A1 - Friederichs, Petra A1 - Göcke, Tobias A1 - Gorges, Ksenia A1 - Hande, Luke A1 - Hanke, Moritz A1 - Hansen, Akio A1 - Hege, Hans-Christian A1 - Hose, Corinna A1 - Jahns, Thomas A1 - Kalthoff, Norbert A1 - Klocke, Daniel A1 - Kneifel, Stefan A1 - Knippertz, Peter A1 - Kuhn, Alexander A1 - van Laar, Thriza A1 - Macke, Andreas A1 - Maurer, Vera A1 - Mayer, Bernhard A1 - Meyer, Catrin I. A1 - Muppa, Shravan K. A1 - Neggers, Roeland A. J. A1 - Orlandi, Emiliano A1 - Pantillon, Florian A1 - Pospichal, Bernhard A1 - Röber, Niklas A1 - Scheck, Leonhard A1 - Seifert, Axel A1 - Seifert, Patric A1 - Senf, Fabian A1 - Siligam, Pavan A1 - Simmer, Clemens A1 - Steinke, Sandra A1 - Stevens, Bjorn A1 - Wapler, Kathrin A1 - Weniger, Michael A1 - Wulfmeyer, Volker A1 - Zängl, Günther A1 - Zhang, Dan A1 - Quaas, Johannes T1 - Large-eddy simulations over Germany using ICON: a comprehensive evaluation JF - Quarterly Journal of the Royal Meteorological Society N2 - Large-eddy simulations (LES) with the new ICOsahedral Non-hydrostatic atmosphere model (ICON) covering Germany are evaluated for four days in spring 2013 using observational data from various sources. Reference simulations with the established Consortium for Small-scale Modelling (COSMO) numerical weather prediction model and further standard LES codes are performed and used as a reference. This comprehensive evaluation approach covers multiple parameters and scales, focusing on boundary-layer variables, clouds and precipitation. The evaluation points to the need to work on parametrizations influencing the surface energy balance, and possibly on ice cloud microphysics. The central purpose for the development and application of ICON in the LES configuration is the use of simulation results to improve the understanding of moist processes, as well as their parametrization in climate models. The evaluation thus aims at building confidence in the model's ability to simulate small- to mesoscale variability in turbulence, clouds and precipitation. The results are encouraging: the high-resolution model matches the observed variability much better at small- to mesoscales than the coarser resolved reference model. In its highest grid resolution, the simulated turbulence profiles are realistic and column water vapour matches the observed temporal variability at short time-scales. Despite being somewhat too large and too frequent, small cumulus clouds are well represented in comparison with satellite data, as is the shape of the cloud size spectrum. Variability of cloud water matches the satellite observations much better in ICON than in the reference model. In this sense, it is concluded that the model is fit for the purpose of using its output for parametrization development, despite the potential to improve further some important aspects of processes that are also parametrized in the high-resolution model. Y1 - 2017 U6 - https://doi.org/10.1002/qj.2947 VL - 143 IS - 702 SP - 69 EP - 100 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 - 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 - 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 - 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 - 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 - JOUR A1 - Kolbeck, Björn A1 - May, Patrick A1 - Schmidt-Goenner, T. A1 - Steinke, Thomas A1 - Knapp, E. T1 - Connectivity independent protein-structure alignment: a hierarchical approach JF - BMC Bioinformatics Y1 - 2006 VL - 7 SP - 510 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 - 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 - Steinke, Thomas A1 - Reinefeld, Alexander T1 - Experiences with High-Level Programming of FPGAs on Cray XD1 T2 - CUG Proceedings Y1 - 2006 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 -