{"id":10038,"date":"2024-04-23T14:50:53","date_gmt":"2024-04-23T12:50:53","guid":{"rendered":"https:\/\/cms.zdv.uni-mainz.de\/fb08-informatik\/?page_id=10038"},"modified":"2025-03-20T09:18:10","modified_gmt":"2025-03-20T08:18:10","slug":"publications","status":"publish","type":"page","link":"https:\/\/www.informatik.uni-mainz.de\/en\/publications\/","title":{"rendered":"Publications"},"content":{"rendered":"\n<\/jgu-base-pageheader>\n \n<\/jgu-base-anchornavigation>\n
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Book chapters<\/h3>\n\t
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Beyer, A., Henkys, V., Kobus, R., et al. (2025). cuTeBool: Fast and\u00a0Scalable Boolean Matrix Factorization on\u00a0GPUs Using Tensor Cores. In Lecture Notes in Computer Science<\/i> (pp. 249-264). Springer Nature Switzerland. DOI<\/a><\/div>\n
Brugger, J., Pfanschilling, V., Richter, D., et al. (2025). Prompting Neural-Guided Equation Discovery Based on\u00a0Residuals. In Lecture Notes in Computer Science<\/i> (pp. 97-112). Springer Nature Switzerland. DOI<\/a><\/div>\n
Koebschall, K., Hartung, L., Kramer, S. (2025). Soft Hoeffding Tree: A Transparent and Differentiable Model on Data Streams<\/i> (Vols. 15243, pp. 167-182). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Stempel, K., Cerrato, M., Kramer, S. (2025). Exploring the\u00a0Design Space of\u00a0Fair Tree Learning Algorithms. In Lecture Notes in Computer Science<\/i> (pp. 176-190). Springer Nature Switzerland. DOI<\/a><\/div>\n
Vexler, J., Vieten, B., Nelke, M., Kramer, S. (2025). Integrating Inverse and Forward Modeling for Sparse Temporal Data from Sensor Networks<\/i> (Vols. 15669, pp. 318-329). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Gallagher, K., Seshagiri, V., Chondrogiannis, T., et al. (2025). Your Friends Reveal Where You Are: Location Estimation based on Friends\u2019 Locations in Geosocial Networks. Proceedings of the 1st ACM SIGSPATIAL International Workshop on Spatial Intelligence for Smart and Connected Communities<\/i>, 43-52. DOI<\/a><\/div>\n
Sa\u00df, J., Brinkmann, A., He, X., et al. (2025). ZTL: Enabling Zoned Namespace Support for\nFile Systems. In S. Tomforde, C. Krupitzer, E. Suarez, and T. Pionteck (eds.), Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)<\/i> (Vols. 15839). Cham:Springer. Author\/Publisher URL<\/a><\/div>\n
Blumenstock, M., Althaus, E., Rassau, N., et al. (2025). Sorting Colored Balls in Colored Tubes. In M. Likhachev, H. Rudov\u00e1, and E. Scala (eds.), Proceedings of the International Symposium on Combinatorial Search<\/i> (Vols. 18, Issue 1, pp. 11-19). The AAAI Press, Washington, DC, USA. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Corbucci, L., Heilmann, X., Cerrato, M. (2025). Benefits of the Federation? Analyzing the Impact of Fair Federated Learning at the Client Level. Proceedings of the 2025 ACM Conference on Fairness, Accountability, and Transparency<\/i>, 2232-2248. DOI<\/a><\/div>\n
Andr\u00e9s L\u00f3pez, D., Weber, V., Zentgraf, S., et al. (2025). Presentation | ThermoCycleNet: Stereo-based Thermogram Labeling for Model Transition to Cycling. In A. Catal\u00e1, G. Joya, and I. Rojas (eds.), Book of Abstracts<\/i> (pp. 24-24). Author\/Publisher URL<\/a><\/div>\n
Schimmelpfennig, F., Brinkmann, A., Asadi, H., Salkhordeh, R. (2025). Enhancing mmap scalability by saving TLB shootdowns during page recycling. 33rd Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP), Best Paper Award<\/i>, 112-120. DOI<\/a><\/div>\n
Heilmann, X., Corbucci, L., Cerrato, M. (2025). A Benchmark for Client-level Fairness in Federated Learning. European Workshop on Algorithmic Fairness<\/i>, 434-438.<\/div>\n
Henneberg, J., Schuhknecht, F. (2025). Do Research, not Data Visualization! How to Create More Consistent Plots for Experimental Research Papers in Less Time. In A. Simitsis, B. Kemme, A. Queralt, et al. (eds.), Proceedings 28th International Conference on Extending Database Technology, EDBT 2025, Barcelona, Spain, March 25-28, 2025<\/i> (pp. 1122-1125). OpenProceedings.org. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Henneberg, J., Schuhknecht, F. M., Kharal, R., Brown, T. (2025). More Bang for Your Buck(et): Fast and Space-Efficient Hardware-Accelerated Coarse-Granular Indexing on GPUs. 41st IEEE International Conference on Data Engineering, ICDE 2025, Hong Kong, May 19-23, 2025<\/i>, 1320-1333. DOI<\/a><\/div>\n
Marianczuk, L., Althaus, E., Irnich, S., Pfetsch, M. E. (2025). A New Relaxation for Tree-Based Problems and Minimum Power-Cost Spanning Trees. In P. Mutzel, N. Prezza (eds.), SEA<\/i> (Vols. 338, pp. 24:1-24:1). Schloss Dagstuhl – Leibniz-Zentrum f\u00fcr Informatik. Author\/Publisher URL<\/a><\/div>\n
Salkhordeh, R., Schuhknecht, F. M., Asadi, H., et al. (2025). No Time to Halt: In-Situ Analysis for Large-Scale Data Processing via Virtual Snapshotting. In A. Simitsis, B. Kemme, A. Queralt, et al. (eds.), EDBT<\/i> (pp. 438-450). OpenProceedings.org. Author\/Publisher URL<\/a><\/div>\n
Vatter, M., Erdweg, S. (2025). Retrofitting a Virtual Instrument DSL with Programming Abstractions. PROCEEDINGS OF THE 24TH ACM SIGPLAN INTERNATIONAL CONFERENCE ON GENERATIVE PROGRAMMING: CONCEPTS AND EXPERIENCES, GPCE 2025<\/i>, 67-79. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Birklein, L., Schomer, E., Schwanecke, U., Schulze, R. (2025). Polychromatic neural CBCT reconstruction through density-attenuation modeling. PHYSICS IN MEDICINE AND BIOLOGY<\/i>, 70<\/i>(24). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Leclaire, J., Kemmer, T., Hildebrandt, A. (2025). Structure-based bioinformatics with BiochemicalAlgorithms.jl. JuliaCon Proceedings<\/i>, 7<\/i>(78), 188-188. DOI<\/a><\/div>\n
Hauptmann, T., Troebs, S.-O., Schulz, A., et al. (2025). Echocardiographic measures read by artificial intelligence enable accurate and rapid prediction of the worsening of heart failure. EUROPEAN HEART JOURNAL – DIGITAL HEALTH<\/i>, 6<\/i>(6), 1246-1256. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Wang, M., Yang, Y., Yin, Z., et al. (2025). RabbitTrim: An Efficient and Versatile Trimmer on Multi-Core Platforms. IEEE TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS<\/i>, 22<\/i>(6), 2442-2452. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kobschall, K., Hartung, L., Kramer, S. (2025). Adaptive differentiable trees for transparent learning on data streams. MACHINE LEARNING<\/i>, 114<\/i>(11). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Christodoulou, G., Rauch, C., et al. (2025). Querying Interval Data on Steroids. IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING<\/i>, 37<\/i>(10), 6120-6134. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kallenborn, F., Chacon, A., Hundt, C., et al. (2025). GPU-accelerated homology search with MMseqs2. NATURE METHODS<\/i>, 22<\/i>(10), 2024-2027. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kishani, M., Ahmadi, S., Ahmadian, S., et al. (2025). ELICA: Efficient and Load Balanced I\/O Cache Architecture for Hyperconverged Infrastructures. IEEE Transactions on Parallel and Distributed Systems<\/i>, 36<\/i>(10), 2152-2168. DOI<\/a><\/div>\n
Rauch, C., Bouros, P. (2025). Fast Indexing for Temporal Information Retrieval. Proceedings of the ACM on Management of Data<\/i>, 3<\/i>(4), 1-28. DOI<\/a><\/div>\n
Zhang, Y., Chen, R., Zhang, G., et al. (2025). HyTorC: Hybrid Address Translation for SSDs supporting Compression. ACM Transactions on Storage<\/i>. Published online. DOI<\/a><\/div>\n
Al-Maaitah, N. O., Garcia-Blas, J., Sanchez-Gallegos, G., et al. (2025). A Comparative Study of Ad-hoc File Systems for Extreme Scale Computing. Future Generation Computer Systems<\/i>, 170<\/i>, 1-18. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Yan, L., Zhao, Z., Yin, Z., et al. (2025). RabbitBAM: Accelerating BAM File Manipulation on Multi-Core Platforms. IEEE TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS<\/i>, 22<\/i>(5), 2320-2326. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A. K., Schomer, E., Hildebrandt, A. (2025). Metric Differential Privacy on the Special Orthogonal Group SO(3). JOURNAL OF CYBERSECURITY AND PRIVACY<\/i>, 5<\/i>(3). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Cheng, W., Tu, S., Liu, Y., et al. (2025). FlashFox: a secret-sharing approach to securing data deletion for Flash-based SSD. COMPUTER JOURNAL<\/i>, 68<\/i>(7), 734-748. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Mamoulis, N. (2025). Relevance Queries for Interval Data. Proceedings of the ACM on Management of Data<\/i>, 3<\/i>(3), 1-26. DOI<\/a><\/div>\n
Cheng, W., Cheng, Q., Liu, Y., et al. (2025). 9Ring: A 3D-Stacked Memory-Based Accelerator for Flexible and Efficient Deep CNN Applications. ACM TRANSACTIONS ON ARCHITECTURE AND CODE OPTIMIZATION<\/i>, 22<\/i>(2). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Welsch, R., Kemmer, T., Teschner, D., et al. (2025). The dynamics of criminal contagion: a text-mining analysis of offense reports. PSYCHOLOGY CRIME & LAW<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Brinkmann, A., Salkhordeh, R., Wiegert, F., et al. (2025). HLN-Tree: A memory-efficient B+-Tree with huge leaf nodes and locality predictors. ACM Trans. Storage<\/i>, 21<\/i>, 14:1-14:1.<\/div>\n
Zhang, T., Yin, Z., Xu, X., et al. (2025). RabbitSketch: a high-performance sketching library for genome analysis. BIOINFORMATICS<\/i>, 41<\/i>(5). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Teschner, D., Gomez-Zepeda, D., Lacki, M. K., et al. (2025). Rustims: An Open-Source Framework for Rapid Development and Processing of timsTOF Data-Dependent Acquisition Data. JOURNAL OF PROTEOME RESEARCH<\/i>, 24<\/i>(5), 2358-2368. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Spangenberg, J., Muendnich, S., Busch, A., et al. (2025). The RMaP challenge of predicting RNA modifications by nanopore sequencing. COMMUNICATIONS CHEMISTRY<\/i>, 8<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Pensel, L., Kramer, S. (2025). Neural RELAGGS. MACHINE LEARNING<\/i>, 114<\/i>(5). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Michalopoulos, A., Tsitsigkos, D., Bouros, P., et al. (2025). Efficient Distance Queries on Non-point Data. ACM TRANSACTIONS ON SPATIAL ALGORITHMS AND SYSTEMS<\/i>, 11<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Yan, L., Yin, Z., Zhang, T., et al. (2025). SWQC: Efficient sequencing data quality control on the next-generation sunway platform. FUTURE GENERATION COMPUTER SYSTEMS-THE INTERNATIONAL JOURNAL OF ESCIENCE<\/i>, 164<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Brinkmann, A., Salkhordeh, R., Wiegert, F., et al. (2025). HLN-Tree: A Memory-efficient B plus -Tree with Huge Leaf Nodes and Locality Predictors. ACM TRANSACTIONS ON STORAGE<\/i>, 21<\/i>(2). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Heilmann, X., Corbucci, L., Cerrato, M., Monreale, A. (2025). FeDa4Fair: Client-Level Federated Datasets for Fairness Evaluation. arXiv preprint arXiv:2506.21095<\/i>.<\/div>\n
Henneberg, J., Schuhknecht, F. M. (2025). All You Need Is Binary Search! A Practical View on Lightweight Database Indexing on GPUs. CoRR<\/i>, abs\/2506.01576<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hieronymus, M., Oertel, A., Miltenberger, A. K., Brinkmann, A. (2025). Spatio-temporal consistency of cloud-microphysical parameter sensitivity in a warm-conveyor belt. Journal of Computational Science<\/i>, 89<\/i>, 102614-102614. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A., Kindermann, M. (2025). The meaning of PFH and its calculation. Derivation of a general formula. ATP MAGAZINE<\/i>, 9<\/i>. Author\/Publisher URL<\/a><\/div>\n
Mueller, A., Wichmann, A., Kallenborn, F., et al. (2025). RMapAlign3N: fast mapping of 3N-Reads. BIOINFORMATICS ADVANCES<\/i>, 5<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
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M\u00fcller, A., Wichmann, A., Kallenborn, F., et al. (2025). Improved Metagenomic Analysis for All-Food-Sequencing with AFS-MetaCache2: Illumina vs. Nanopore. In openRxiv<\/i>. DOI<\/a><\/div>\n
Kallenborn, F., Dabbaghie, F., Steinegger, M., Schmidt, B. (2025). Accelign: a GPU-based Library for Accelerating Pairwise Sequence Alignment. In openRxiv<\/i>. DOI<\/a><\/div>\n
Piechotta, M., Guo, W., Naarmann-de Vries, I. S., et al. (2025). QutRNA2: Robust tRNA modification discovery from Nanopore direct tRNA sequencing. In openRxiv<\/i>. DOI<\/a><\/div>\n
Andr\u00e9s L\u00f3pez, D., Weber, V., Zentgraf, S., et al. (2025). ThermoCycleNet: Stereo-based Thermogram Labeling for Model Transition to Cycling. In Zenodo; Arxiv<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Boer, D., Roth, S., Kramer, S. (2025). Autofocus Retrieval: An Effective Pipeline for Multi-Hop Question Answering With Semi-Structured Knowledge<\/i>. Author\/Publisher URL<\/a><\/div>\n
Pensel, L., Kramer, S. (2025). Human Guided Learning of Transparent Regression Models<\/i>. Author\/Publisher URL<\/a><\/div>\n
Birklein, L., Sch\u00f6mer, E., Schwanecke, U., Schulze, R. (2025). Abschlussbericht \u201eRekonstruktion von durch artikulierte Kiefer- und andere Patientenbewegungen gest\u00f6rten DVT-Datens\u00e4tzen\u201c<\/i>. Mainz:Johannes Gutenberg-Universit\u00e4t Mainz. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Heilmann, X., Henkys, V., Apeldoorn, D., et al. (2024). Studying Privacy Aspects of Learned Knowledge Bases in the Context of Synthetic and Medical Data. In Studies in Health Technology and Informatics<\/i>. IOS Press. DOI<\/a><\/div>\n
Althaus, E., Schnurbusch, D. (2024). Reducing Treewidth for SAT-Related Problems Using Simple Liftings<\/i> (Vols. 14594, pp. 175-191). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (2024). Informatikunterricht bedeutet, unsere Lebenswelt gemeinsam zu gestalten. In D. Komm (ed.), Wirksamer Informatikunterricht<\/i> (pp. 60-70). Schneider Verlag Hohengehren GmbH, Baltmannsweiler, Germany.<\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Klopp, D., Pacak, A., Erdweg, S. (2024). Separate Compilation and Partial Linking: Modules for Datalog IR. Proceedings of the 23rd ACM SIGPLAN International Conference on Generative Programming: Concepts and Experiences<\/i>, 94-106. DOI<\/a><\/div>\n
Borba, E., Salkhordeh, R., Mimouni, S., et al. (2024). A Hierarchical Modeling Approach for Assessing the Reliability and Performability of Burst Buffers. Proceedings of the 37th GI\/IT International Conference on Architecture of Computing Systems (ARCS), Potsdam, Germany, May 14th – 16th<\/i>.<\/div>\n
Heilmann, X., Cerrato, M., Althaus, E. (2024). Differentially Private Sum-Product Networks. In R. Salakhutdinov, Z. Kolter, K. A. Heller, et al. (eds.), ICML<\/i> (Vols. 235, pp. 18155-18173). PMLR \/ OpenReview.net. Author\/Publisher URL<\/a><\/div>\n
Huang, H., Wang, P., Su, Q., et al. (2024). Palantir: Hierarchical Similarity Detection for Post-Deduplication Delta Compression. Proceedings of the ACM International Conference on Architectural Support for Programming Languages and Operating Systems (ASPLOS), Volume 2, La Jolla, CA, USA, 27 April 2024- 1 May<\/i>, 830-845. DOI<\/a><\/div>\n
Marx, S., Erdweg, S. (2024). Abstract Interpretation of Java Bytecode in Sturdy. PROCEEDINGS OF THE 26TH ACM INTERNATIONAL WORKSHOP ON FORMAL TECHNIQUES FOR JAVA-LIKE PROGRAMS, FTFJP 2024<\/i>, 17-22. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Medeiros, D., Gregory, E. B., Couvee, P., et al. (2024). IO-SEA: Storage I\/O and Data Management for Exascale Architectures Invited Paper. PROCEEDINGS OF THE 21ST ACM INTERNATIONAL CONFERENCE ON COMPUTING FRONTIERS 2024-WORKSHOPS AND SPECIAL SESSIONS, CF 2024 COMPANION<\/i>, 94-100. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Niebler, S., Schmidt, B., Spichtinger, P., Tost, H. (2024). Scalable GPU-Enabled Creation of Three DimensionalWeather Fronts. PASC 2024: PROCEEDINGS OF THE PLATFORM FOR ADVANCED SCIENTIFIC COMPUTING CONFERENCE<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Nief, O., Henneberg, J., Schuhknecht, F. (2024). The Gather Join: Efficiently Aligning Atmospheric Datasets in Apache Spark. In W. Ding, C.-T. Lu, F. Wang, et al. (eds.), IEEE International Conference on Big Data, BigData 2024, Washington, DC, USA, December 15-18, 2024<\/i> (pp. 3745-3754). IEEE. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Pacak, A., Kumar, P., Xu, R., Erdweg, S. (2024). AUTOINC: Incrementality for Free. COMPANION PROCEEDINGS OF THE 2024 ACM SIGPLAN INTERNATIONAL CONFERENCE ON SYSTEMS, PROGRAMMING, LANGUAGES, AND APPLICATIONS: SOFTWARE FOR HUMANITY, SPLASH COMPANION 2024<\/i>, 57-59. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Qian, Y., Vef, M.-A., Farrell, P., et al. (2024). Combining Buffered I\/O and Direct I\/O in Distributed File Systems. Proceedings of the 22nd USENIX Conference on File and Storage Technologies (FAST), Santa Clara, CA, USA, February 27-29<\/i>, 17-33. Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M. (2024). Taking the Shortcut: Actively Incorporating the Virtual Memory Index of the OS to Hardware-Accelerate Database Indexing. 14th Conference on Innovative Data Systems Research, CIDR 2024, Chaminade, HI, USA, January 14-17, 2024<\/i>. Author\/Publisher URL<\/a><\/div>\n
Wang, M., Yin, Z., Yan, L., et al. (2024). RabbitTrim: Highly Optimized Trimming of Illumina Sequencing Data on Multi-core Platforms. BIOINFORMATICS RESEARCH AND APPLICATIONS, PT II, ISBRA 2024<\/i>, 14955<\/i>, 26-37. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Weissenberger, A., Schmidt, B. (2024). Massively Parallel Inverse Block-sorting Transforms for bzip2 Decompression on GPUs. 53RD INTERNATIONAL CONFERENCE ON PARALLEL PROCESSING, ICPP 2024<\/i>, 856-865. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Yan, L., Yin, Z., Li, J., et al. (2024). RabbitSAlign: Accelerating Short-Read Alignment for CPU-GPU Heterogeneous Platforms. BIOINFORMATICS RESEARCH AND APPLICATIONS, PT II, ISBRA 2024<\/i>, 14955<\/i>, 83-94. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Zhang, S., Qi, J., Yao, X., Brinkmann, A. (2024). Hyper: Achieving High-Performance and Memory-Efficient Learned Index Via Hybrid Construction. To appear in International Conference on Management of Data (SIGMOD), Santiago, Chile, June 09 – 15<\/i>. International Conference on Management of Data (SIGMOD), Santiago, Chile.<\/div>\n
Zimmermann, A., Hildebrandt, A. (2024). An Exact Formula for the Hazardous Event Frequency. 2024 ANNUAL RELIABILITY AND MAINTAINABILITY SYMPOSIUM, RAMS<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Karimi, M., Salkhordeh, R., Brinkmann, A., Asadi, H. (2024). HybRAID: A High-Performance Hybrid RAID Storage Architecture for Write-Intensive Applications in All-Flash Storage Systems. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 35<\/i>(12), 2608-2623. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schreiber, Q., Wolpert, N., Sch\u00f6mer, E. (2024). METNet: A mesh exploring approach for segmenting 3D textured urban scenes. ISPRS Journal of Photogrammetry and Remote Sensing<\/i>, 218<\/i>, 498-509. DOI<\/a><\/div>\n
Schmidt, B., Kallenborn, F., Chacon, A., Hundt, C. (2024). CUDASW++4.0: ultra-fast GPU-based Smith-Waterman protein sequence database search. BMC BIOINFORMATICS<\/i>, 25<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Raaf, P., Brinkmann, A., Borba, E., et al. (2024). From SSDs Back to HDDs: Optimizing VDO to Support Inline Deduplication and Compression for HDDs as Primary Storage Media. ACM Trans. Storage<\/i>, 20<\/i>, 24:1-24:1.<\/div>\n
Raaf, P., Brinkmann, A., Borba, E., et al. (2024). From SSDs Back to HDDs: Optimizing VDO to Support Inline Deduplication and Compression for HDDs as Primary Storage Media. ACM TRANSACTIONS ON STORAGE<\/i>, 20<\/i>(4). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Klopp, D., Erdweg, S., Pacak, A. (2024). A Typed Multi-level Datalog IR and Its Compiler Framework. PROCEEDINGS OF THE ACM ON PROGRAMMING LANGUAGES-PACMPL<\/i>, 8<\/i>(OOPSLA2). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Klopp, D., Erdweg, S., Pacak, A. (2024). Object-Oriented Fixpoint Programming with Datalog. PROCEEDINGS OF THE ACM ON PROGRAMMING LANGUAGES-PACMPL<\/i>, 8<\/i>(OOPSLA). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Lopez, D. A., Hillen, B., Naegele, M., et al. (2024). ThermoNet: advanced deep neural network-based thermogram processing pipeline for automatic time series analysis of specific skin areas in moving legs. JOURNAL OF THERMAL ANALYSIS AND CALORIMETRY<\/i>, 149<\/i>(19), 11337-11348. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Tarraf, A., Schreiber, M., Cascajo, A., et al. (2024). Malleability in Modern HPC Systems: Current Experiences, Challenges, and Future Opportunities. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 35<\/i>(9), 1551-1564. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Lopez, D. A., Hillen, B., Naegele, M., et al. (2024). StereoThermoLegs: label propagation with multimodal stereo cameras for automated annotation of posterior legs during running at different velocities. JOURNAL OF THERMAL ANALYSIS AND CALORIMETRY<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Hildebrandt, A. (2024). From GPUs to AI and quantum: three waves of acceleration in bioinformatics. DRUG DISCOVERY TODAY<\/i>, 29<\/i>(6). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Fischer, C., Fink, A. H., Sch\u00f6mer, E., et al. (2024). An objective identification technique for potential vorticity structures associated with African easterly waves. Geoscientific Model Development<\/i>, 17<\/i>(10), 4213-4228. DOI<\/a><\/div>\n
Kallenborn, F., Schmidt, B. (2024). CAREx: context-aware read extension of paired-end sequencing data. BMC BIOINFORMATICS<\/i>, 25<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Christodoulou, G., Bouros, P., Mamoulis, N. (2024). LIT: Lightning-fast In-memory Temporal Indexing. Proceedings of the ACM on Management of Data<\/i>, 2<\/i>(1), 1-27. DOI<\/a><\/div>\n
Tsitsigkos, D., Bouros, P., Lampropoulos, K., et al. (2024). Two-Layer Space-Oriented Partitioning for Non-Point Data. IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING<\/i>, 36<\/i>(3), 1341-1355. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
King, R. D., Scassa, T., Kramer, S., Kitano, H. (2024). Stockholm declaration on AI ethics: why others should sign. Nature<\/i>, 626<\/i>(8000), 716-716. DOI<\/a><\/div>\n
Christodoulou, G., Bouros, P., Mamoulis, N. (2024). HINT: a hierarchical interval index for Allen relationships. VLDB JOURNAL<\/i>, 33<\/i>(1), 73-100. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Derstroff, C., Brugger, J., Bl\u00fcml, J., et al. (2024). Amplifying Exploration in Monte-Carlo Tree Search by Focusing on the Unknown. CoRR<\/i>, abs\/2402.08511<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Henneberg, J., Schuhknecht, F., Kharal, R., Brown, T. (2024). More Bang For Your Buck(et): Fast and Space-efficient Hardware-accelerated Coarse-granular Indexing on GPUs. CoRR<\/i>, abs\/2406.03965<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schimmelpfennig, F., Brinkmann, A., Asadi, H., Salkhordeh, R. (2024). Skip TLB flushes for reused pages within mmap\u2019s. CoRR<\/i>, abs\/2409.10946<\/i>.<\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
\n\n\t\n\t
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Schmidt, B., Kallenborn, F., Wichmann, A., et al. (2024). gpuPairHMM: High-speed Pair-HMM Forward Algorithm for DNA Variant Calling on GPUs<\/i>. Author\/Publisher URL<\/a><\/div>\n
Kallenborn, F., Chacon, A., Hundt, C., et al. (2024). GPU-accelerated homology search with MMseqs2. In openRxiv<\/i>. DOI<\/a><\/div>\n
Boer, D., Koch, F., Kramer, S. (2024). Harnessing the Power of Semi-Structured Knowledge and LLMs with Triplet-Based Prefiltering for Question Answering<\/i>. Author\/Publisher URL<\/a><\/div>\n
Andr\u00e9s L\u00f3pez, D., Hillen, B., Naegele, M., et al. (2024). StereoThermoLegs Dataset<\/i>. DOI<\/a><\/div>\n
Althaus, E., Hartung, L., Steiner, R. (2024). A Random Walk Approach to Broadcasting on Random Recursive Trees<\/i>. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
\n\n\t\n\t
\n
Andr\u00e9s L\u00f3pez, D. (2024). ThermoNet: deep neural network thermogram analysis of human calves during physical exercise<\/i> [PhD Thesis]. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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\n
Althaus, E., Funke, S., and Schrauth, M. (2023). Privacy Preserving Queries of Shortest Path Distances<\/i> (Vols. 13799, pp. 94-101). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Dai, H., Wu, J., Brinkmann, A., and Wang, Y. (2023). Neighborhood-Oriented Decentralized Learning Communication in Multi-Agent System<\/i> (Vols. 14256, pp. 490-502). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kobus, R., Nelgen, J., Henkys, V., and Schmidt, B. (2023). Faster Segmented Sort on GPUs<\/i> (Vols. 14100, pp. 664-678). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Niebler, S., Schmidt, B., Tost, H., and Spichtinger, P. (2023). Automated Identification and\u00a0Location of\u00a0Three Dimensional Atmospheric Frontal Systems. In Lecture Notes in Computer Science<\/i> (pp. 3-17). Springer Nature Switzerland. DOI<\/a><\/div>\n
Vexler, J., and Kramer, S. (2023). Classifying Aircraft Categories from Magnetometry Data Using a Hypotheses-Based Multi-Task Framework<\/i> (Vols. 372, pp. 3241-3248). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
\n
Moti, N., Brinkmann, A., Vef, M.-A., et al. (2023, November 12). The I\/O Trace Initiative: Building a Collaborative I\/O Archive to Advance HPC. Proceedings of the SC \u201923 Workshops of The International Conference on High Performance Computing, Network, Storage, and Analysis<\/i>. Published. SC-W 2023: Workshops of The International Conference on High Performance Computing, Network, Storage, and Analysis. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Vexler, J., Kramer, S. (2023). Identifying Aircraft Motions and Patterns from Magnetometry Data Using a Knowledge-Based Multi-Fusion Approach. 2023 26th International Conference on Information Fusion (FUSION)<\/i>, 1-8. DOI<\/a><\/div>\n
Andr\u00e9s L\u00f3pez, D., Hillen, B., Simon, P., Sch\u00f6mer, E. (2023). Presentation | Improved deep neural network-driven automatic segmentation of skin\u2019s thermal radiation in moving posterior legs during cardiopulmonary exercise testing for time series data analysis<\/i> (A. Kiad\u00f3, ed.).<\/div>\n
Bammert, L.-M., Kramer, S., Cerrato, M., Althaus, E. (2023). Privacy-Preserving Learning of Random Forests Without Revealing the Trees. In A. Bifet, A. C. Lorena, R. P. Ribeiro, et al. (eds.), DS<\/i> (Vols. 14276, pp. 372-386). Springer. Author\/Publisher URL<\/a><\/div>\n
Birklein, L., Sch\u00f6mer, E., Brylka, R., et al. (2023). Neural Deformable Cone Beam CT. In C. Hansen, J. Procter, R. G. Raidou, et al. (eds.), Eurographics Workshop on Visual Computing for Biology and Medicine<\/i>. The Eurographics Association. DOI<\/a><\/div>\n
Bytyqi, Q., Wolpert, N., Sch\u00f6mer, E., Schwanecke, U. (2023). Prototype Softmax Cross Entropy: A New Perspective on Softmax Cross Entropy. In R. Gade, M. Felsberg, J.-K. K\u00e4m\u00e4r\u00e4inen (eds.), Image Analysis<\/i> (pp. 16-31). Cham:Springer Nature Switzerland. DOI<\/a><\/div>\n
Carretero, J., Garcia-Blas, J., Aldinucci, M., et al. (2023). Adaptive multi-tier intelligent data manager for Exascale. Proceedings of the 20th ACM International Conference on Computing Frontiers {CF}, Bologna, Italy, May 9-11<\/i>, 285-290. DOI<\/a><\/div>\n
Cerrato, M., K\u00f6ppel, M., Esposito, R., Kramer, S. (2023). Invariant Representations with Stochastically Quantized Neural Networks. In B. Williams, Y. Chen, J. Neville (eds.), Thirty-Seventh AAAI Conference on Artificial Intelligence, AAAI 2023, Thirty-Fifth Conference on Innovative Applications of Artificial Intelligence, IAAI 2023, Thirteenth Symposium on Educational Advances in Artificial Intelligence, EAAI 2023, Washington, DC, USA, February 7-14, 2023<\/i> (pp. 6962-6970). AAAI Press. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (2023). Quadrologik: Rechnertechnik “Hands on”. In L. Hellmig, M. Hennecke (eds.), Informatikunterricht zwischen Aktualit\u00e4t und Zeitlosigkeit: 20. GI-Fachtagung Informatik und Schule, INFOS 2023, W\u00fcrzburg, Germany, September 20-22, 2023: Vol. P-336<\/i> (pp. 457-461). Gesellschaft f\u00fcr Informatik, Bonn. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kerth, A., Schuhknecht, F. M., Pensel, L., Henneberg, J. (2023). Better Safe than Sorry: Visualizing, Predicting, and Successfully Guiding Courses of Study. In B. K\u00f6nig-Ries, S. Scherzinger, W. Lehner, G. Vossen (eds.), BTW: Vol. P-331<\/i> (pp. 665-671). Gesellschaft f\u00fcr Informatik e.V. Author\/Publisher URL<\/a><\/div>\n
Michalopoulos, A., Tsitsigkos, D., Bouros, P., et al. (2023). Efficient Nearest Neighbor Queries on Non-point Data. 31ST ACM SIGSPATIAL INTERNATIONAL CONFERENCE ON ADVANCES IN GEOGRAPHIC INFORMATION SYSTEMS, ACM SIGSPATIAL GIS 2023<\/i>, 147-150. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Qian, Y., Cheng, W., Zeng, L., et al. (2023). Xfast: Extreme File Attribute Stat Acceleration for Lustre. Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis (SC), Denver, CO, USA, November 12-17<\/i>, 96:1-96:12. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Sarsour, A. A. R., Bouros, P., Chondrogiannis, T. (2023). Towards Generating Realistic Geosocial Networks. PROCEEDINGS OF THE 7TH ACM SIGSPATIAL INTERNATIONAL WORKSHOP ON LOCATION-BASED RECOMMENDATIONS, GEOSOCIAL NETWORKS AND GEOADVERTISING, LOCALREC 2023<\/i>, 25-28. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Henneberg, J. (2023). Towards Adaptive Storage Views in Virtual Memory. 13th Conference on Innovative Data Systems Research, CIDR 2023, Amsterdam, The Netherlands, January 8-11, 2023<\/i>. Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Islam, T. (2023). Inter-Query Parallelism on Heterogeneous Multi-Core CPUs. In B. K\u00f6nig-Ries, S. Scherzinger, W. Lehner, G. Vossen (eds.), Datenbanksysteme f\u00fcr Business, Technologie und Web (BTW 2023), 20. Fachtagung des GI-Fachbereichs ,,Datenbanken und Informationssysteme” (DBIS), 06.-10, M\u00e4rz 2023, Dresden, Germany, Proceedings: Vol. P-331<\/i> (pp. 719-728). Gesellschaft f\u00fcr Informatik e.V. DOI<\/a><\/div>\n
Schuhknecht, F. M., J\u00f6rz, S. (2023). The Easiest Way of Turning your Relational Database into a Blockchain – and the Cost of Doing So. In B. K\u00f6nig-Ries, S. Scherzinger, W. Lehner, G. Vossen (eds.), Datenbanksysteme f\u00fcr Business, Technologie und Web (BTW 2023), 20. Fachtagung des GI-Fachbereichs ,,Datenbanken und Informationssysteme” (DBIS), 06.-10, M\u00e4rz 2023, Dresden, Germany, Proceedings: Vol. P-331<\/i> (pp. 131-153). Gesellschaft f\u00fcr Informatik e.V. DOI<\/a><\/div>\n
Schuhknecht, F., Henneberg, J. (2023). Accelerating Main-Memory Table Scans with Partial Virtual Views. 19TH INTERNATIONAL WORKSHOP ON DATA MANAGEMENT ON NEW HARDWARE, DAMON 2023<\/i>, 89-93. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F., Henneberg, J. (2023). Why Your Experimental Results Might Be Wrong. 19TH INTERNATIONAL WORKSHOP ON DATA MANAGEMENT ON NEW HARDWARE, DAMON 2023<\/i>, 94-97. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Vef, M.-A., Miranda, A., Nou, R., Brinkmann, A. (2023). From Static to Malleable: Improving Flexibility and Compatibility in Burst Buffer File Systems. 2nd International Workshop on Malleability Techniques Applications in High-Performance Computing (HPCMall)<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Lerner, R., Baker, D., Schwitter, C., et al. (2023). Four-dimensional trapped ion mobility spectrometry lipidomics for high throughput clinical profiling of human blood samples. NATURE COMMUNICATIONS<\/i>, 14<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gao, P., Duan, X., Schmidt, B., et al. (2023). Redesign and Accelerate the AIREBO Bond-Order Potential on the New Sunway Supercomputer. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 34<\/i>(12), 3117-3132. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hauptmann, T., Fellenz, S., Nathan, L., et al. (2023). Discriminative machine learning for maximal representative subsampling. SCIENTIFIC REPORTS<\/i>, 13<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Lang, F., Sorn, P., Schr\u00f6rs, B., et al. (2023). Multiple instance learning to predict immune checkpoint blockade efficacy using neoantigen candidates. iScience<\/i>, 26<\/i>(11), 108014. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kreppel, F., Melzer, C., Olvera Mill\u00e1n, D. A., et al. (2023). Quantum Circuit Compiler for a Shuttling-Based Trapped-Ion Quantum Computer. Quantum<\/i>, 7<\/i>, 1176-1176. DOI<\/a><\/div>\n
Xu, X., Yin, Z., Yan, L., et al. (2023). RabbitKSSD: accelerating genome distance estimation on modern multi-core architectures. BIOINFORMATICS<\/i>, 39<\/i>(11). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Pacak, A., Erdweg, S. (2023). Interactive Debugging of Datalog Programs. PROCEEDINGS OF THE ACM ON PROGRAMMING LANGUAGES-PACMPL<\/i>, 7<\/i>(OOPSLA). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Teschner, D., Gomez-Zepeda, D., Declercq, A., et al. (2023). Ionmob: a Python package for prediction of peptide collisional cross-section values. BIOINFORMATICS<\/i>, 39<\/i>(9). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Henneberg, J., Schuhknecht, F. (2023). RTIndeX: Exploiting Hardware-Accelerated GPU Raytracing for Database Indexing. PROCEEDINGS OF THE VLDB ENDOWMENT<\/i>, 16<\/i>(13), 4268-4281. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Neuhauser, C., Hieronymus, M., Kern, M., et al. (2023). Visual analysis of model parameter sensitivities along warm conveyor belt trajectories using Met.3D (1.6.0-multivar1). GEOSCIENTIFIC MODEL DEVELOPMENT<\/i>, 16<\/i>(16), 4617-4638. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Keidel, S., Erdweg, S., Hombuecher, T. (2023). Combinator-Based Fixpoint Algorithms for Big-Step Abstract Interpreters. PROCEEDINGS OF THE ACM ON PROGRAMMING LANGUAGES-PACMPL<\/i>, 7<\/i>(ICFP). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Yan, L., Yin, Z., Zhang, H., et al. (2023). RabbitQCPlus 2.0: More efficient and versatile quality control for sequencing data. METHODS<\/i>, 216<\/i>, 39-50. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Zhang, H., Yin, Z., Wei, Y., et al. (2023). DeepFilter: A Deep Learning Based Variant Filter for VarDict. TSINGHUA SCIENCE AND TECHNOLOGY<\/i>, 28<\/i>(4), 665-672. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Wichmann, A., Buschong, E., Mueller, A., et al. (2023). MetaTransformer: deep metagenomic sequencing read classification using self-attention models. NAR GENOMICS AND BIOINFORMATICS<\/i>, 5<\/i>(3). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hillen, B., Lopez, D. A., Marzano-Felisatti, J. M., et al. (2023). Acute physiological responses to a pyramidal exercise protocol and the associations with skin temperature variation in different body areas. JOURNAL OF THERMAL BIOLOGY<\/i>, 115<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Birklein, L., Niebler, S., Schoemer, E., et al. (2023). Motion correction for separate mandibular and cranial movements in cone beam CT reconstructions. MEDICAL PHYSICS<\/i>, 50<\/i>(6), 3511-3525. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kemmer, T., Hack, S., Schmidt, B., Hildebrandt, A. (2023). CUDA-accelerated protein electrostatics in linear space. JOURNAL OF COMPUTATIONAL SCIENCE<\/i>, 70<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hillen, B., Lopez, D. A., Pfirrmann, D., et al. (2023). An exploratory, intra- and interindividual comparison of the deep neural network automatically measured calf surface radiation temperature during cardiopulmonary running and cycling exercise testing: A preliminary study. JOURNAL OF THERMAL BIOLOGY<\/i>, 113<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Duan, X., Shao, Q., Weng, J., et al. (2023). Bio-ESMD: A Data Centric Implementation for Large-Scale Biological System Simulation on Sunway TaihuLight Supercomputer. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 34<\/i>(3), 881-893. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hauptmann, T., Kramer, S. (2023). A fair experimental comparison of neural network architectures for latent representations of multi-omics for drug response prediction. BMC BIOINFORMATICS<\/i>, 24<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Bumpus, B. M., Fairbanks, J. P., Rosiak, D. (2023). Compositional Algorithms on Compositional Data: Deciding Sheaves on Presheaves. CoRR<\/i>, abs\/2302.05575<\/i>.<\/div>\n
Cheng, W., Sang, D., Zeng, L., et al. (2023). Tianji: Securing A Practical Asynchronous Multi-User ORAM. IEEE Transactions on Dependable and Secure Computing<\/i>, 1-13. DOI<\/a><\/div>\n
Derstroff, C., Cerrato, M., Brugger, J., et al. (2023). Peer Learning: Learning Complex Policies in Groups from Scratch via Action Recommendations. CoRR<\/i>, abs\/2312.09950<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Henneberg, J., Schuhknecht, F. (2023). RTIndeX: Exploiting Hardware-Accelerated GPU Raytracing for Database Indexing. CoRR<\/i>, abs\/2303.01139<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kramer, S., Cerrato, M., Dzeroski, S., King, R. D. (2023). Automated Scientific Discovery: From Equation Discovery to Autonomous Discovery Systems. CoRR<\/i>, abs\/2305.02251<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. (2023). Taking the Shortcut: Actively Incorporating the Virtual Memory Index of the OS to Hardware-Accelerate Database Indexing. CoRR<\/i>, abs\/2310.09124<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Zhang, H., Song, H., Xu, X., et al. (2023). RabbitFX: Efficient Framework for FASTA\/Q File Parsing on Modern Multi-Core Platforms. IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS<\/i>, 20<\/i>(3), 2341-2348. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
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Schmidt, B., Kallenborn, F., Chacon, A., and Hundt, C. (2023). CUDASW++4.0: Ultra-fast GPU-based Smith-Waterman Protein Sequence Database Search. In openRxiv<\/i>. DOI<\/a><\/div>\n
Tsitsigkos, D., Bouros, P., Lampropoulos, K., et al. (2023). Two-layer Space-oriented Partitioning for Non-point Data<\/i>. Author\/Publisher URL<\/a><\/div>\n
Hieronymus, M., Neuhauser, C., Kern, M., et al. (2023). Multi-parameter sensitivities along warm conveyor belt trajectories: A visual analysis using Met.3D. In Copernicus GmbH<\/i>. DOI<\/a><\/div>\n
Neuhauser, C., Hieronymus, M., Kern, M., et al. (2023). Visual analysis of model parameter sensitivities along warm conveyor belt trajectories using Met.3D (1.6.0-multivar0). In Copernicus GmbH<\/i>. DOI<\/a><\/div>\n
Althaus, E., Bumpus, B. M., Fairbanks, J., Rosiak, D. (2023). Compositional Algorithms on Compositional Data: Deciding Sheaves on Presheaves<\/i>. Author\/Publisher URL<\/a><\/div>\n
Distler, U., \u0141\u0105cki, M. K., Startek, M. P., et al. (2023). midiaPASEF maximizes information content in data-independent acquisition proteomics. In openRxiv<\/i>. DOI<\/a><\/div>\n
Zhang, H., Song, H., Yin, Z., et al. (2023). RabbitVar: ultra-fast and accurate somatic small-variant calling on multi-core architectures. In openRxiv<\/i>. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
\n\n\t\n\t
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Rodrigues Borba, E. (2023). Stochastic Modeling of Data Storage Systems for Evaluating Performance, Dependability, and Energy Consumption<\/i> (E. Tavares, P. Maciel, and A. Brinkmann, eds.) [PhD Thesis]. Author\/Publisher URL<\/a><\/div>\n
Vef, M.-A. (2023). New techniques for tracing and designing HPC storage systems<\/i> (A. Brinkmann, ed.) [PhD Thesis]. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Conference Papers<\/h3>\n\t
\n\n\t\n\t
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Moti, N., Salkhordeh, R., Brinkmann, A. (2022). Protected Functions: User Space Privileged Function Calls. Proceedings of the 35th International Conference on the Architecture of Computing Systems (ARCS), Heilbronn, Germany, September 13-15<\/i>, 117-131. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Berenbrink, P., Brinkmann, A., Steiner, R. (2022). On the Optimality of the Greedy Garbage Collection Strategy for SSDs. Proceedings of the 42nd IEEE International Conference on Distributed Computing Systems (ICDCS)<\/i>, 78-88. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Adesso, M. F., Hegewald, R., Wolpert, N., et al. (2022). Automatic Classification and Disassembly of Fasteners in Industrial 3D CAD-Scenarios. 2022 IEEE INTERNATIONAL CONFERENCE ON ROBOTICS AND AUTOMATION, ICRA 2022<\/i>, 9874-9880. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Ajdari, M., Raaf, P., Kishani, M., et al. (2022). An Enterprise-Grade Open-Source Data Reduction Architecture for All-Flash Storage Systems. In D. Manjunath, J. Nair, N. Carlsson, et al. (eds.), SIGMETRICS (Abstracts)<\/i> (pp. 59-60). ACM. Author\/Publisher URL<\/a><\/div>\n
Cheng, W., Zheng, T., Zeng, L., et al. (2022). DPLFS: A Dual-Mode PCM-based Log-Structured File System. 2022 IEEE 40TH INTERNATIONAL CONFERENCE ON COMPUTER DESIGN (ICCD 2022)<\/i>, 324-331. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Dorn, S., Wolpert, N., Schoemer, E. (2022). An Assembly Sequence Planning Framework for Complex Data using General Voronoi Diagram. 2022 IEEE INTERNATIONAL CONFERENCE ON ROBOTICS AND AUTOMATION, ICRA 2022<\/i>, 9896-9902. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hegewald, R., Wolpert, N., Schoemer, E. (2022). Iterative Mesh Modification Planning: A new Method for Automatic Disassembly Planning of Complex Industrial Components. 2022 IEEE INTERNATIONAL CONFERENCE ON ROBOTICS AND AUTOMATION (ICRA 2022)<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hegewald, R., Wolpert, N., Schoemer, E. (2022). Simulation and Optimization of Industrial Disassembly Paths using Position Based Dynamics. 2022 26TH INTERNATIONAL CONFERENCE ON METHODS AND MODELS IN AUTOMATION AND ROBOTICS, MMAR 2022<\/i>, 282-287. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Henkys, V., Schmidt, B., Berger, N. (2022). Online Event Selection for Mu3e using GPUs. ISPDC<\/i>, 17-24. Author\/Publisher URL<\/a><\/div>\n
M\u00fcller, A., Schmidt, B., Membarth, R., et al. (2022). AnySeq\/GPU: a novel approach for faster sequence alignment on GPUs. In L. Rauchwerger, K. W. Cameron, D. S. Nikolopoulos, D. N. Pnevmatikatos (eds.), ICS<\/i> (pp. 20:1-20:1). ACM. Author\/Publisher URL<\/a><\/div>\n
Qian, Y., Cheng, W., Zeng, L., et al. (2022). MetaWBC: POSIX-Compliant Metadata Write-Back Caching for Distributed File Systems. SC<\/i>, 56:1-56:1.<\/div>\n
Qian, Y., Cheng, W., Zeng, L., et al. (2022). MetaWBC: POSIX-compliant metadata write-back caching for distributed file systems. Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis (SC)<\/i>, 795-814.<\/div>\n
Siekiera, J., K\u00f6ppel, M., Simpson, E., et al. (2022). Ranking Creative Language Characteristics in Small Data Scenarios. In M. M. Hedblom, A. A. Kantosalo, R. Confalonieri, et al. (eds.), Proceedings of the 13th International Conference on Computational Creativity, Bozen-Bolzano, Italy, June 27 – July 1, 2022<\/i> (pp. 136-140). Association for Computational Creativity (ACC). Author\/Publisher URL<\/a><\/div>\n
Yan, L., Yin, Z., Zhang, H., et al. (2022). RabbitQCPlus: More Efficient Quality Control for Sequencing Data. 2022 IEEE INTERNATIONAL CONFERENCE ON BIOINFORMATICS AND BIOMEDICINE, BIBM<\/i>, 619-626. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
\n
Calandra, I., Bob, K., Merceron, G., et al. (2022). Surface texture analysis in Toothfrax and MountainsMap\u00ae SSFA module: Different software packages, different results?. Peer Community Journal<\/i>, 2<\/i>. DOI<\/a><\/div>\n
Xu, K., Zhang, J., Duan, X., et al. (2022). Redesigning and Optimizing UCSF DOCK3.7 on Sunway TaihuLight. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 33<\/i>(12), 4458-4471. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Meng, J., Zhuang, C., Chen, P., et al. (2022). Automatic Generation of High-Performance Convolution Kernels on ARM CPUs for Deep Learning. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 33<\/i>(11), 2885-2899. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Krueger, M., Wilson, J., Wietzoreck, M., et al. (2022). Convolutional neural network prediction of molecular properties for aerosol chemistry and health effects. NATURAL SCIENCES<\/i>, 2<\/i>(4). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Pohler, A., Abdelfatah, S., Riedl, M., et al. (2022). Potential Coronaviral Inhibitors of the Nucleocapsid Protein Identified In Silico and In Vitro from a Large Natural Product Library. PHARMACEUTICALS<\/i>, 15<\/i>(9). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Brodehl, S., Mueller, R., Schoemer, E., et al. (2022). End-to-End Prediction of Lightning Events from Geostationary Satellite Images. REMOTE SENSING<\/i>, 14<\/i>(15). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bob, K., Teschner, D., Kemmer, T., et al. (2022). Locality-sensitive hashing enables efficient and scalable signal classification in high-throughput mass spectrometry raw data. BMC BIOINFORMATICS<\/i>, 23<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kallenborn, F., Cascitti, J., Schmidt, B. (2022). CARE 2.0: reducing false-positive sequencing error corrections using machine learning. BMC BIOINFORMATICS<\/i>, 23<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Fischer, C., Fink, A. H., Schoemer, E., et al. (2022). A novel method for objective identification of 3-D potential vorticity anomalies. GEOSCIENTIFIC MODEL DEVELOPMENT<\/i>, 15<\/i>(11). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Ajdari, M., Raaf, P., Kishani, M., et al. (2022). An Enterprise-Grade Open-Source Data Reduction Architecture for All-Flash Storage Systems. Proc. ACM Meas. Anal. Comput. Syst.<\/i>, 6<\/i>. DOI<\/a><\/div>\n
Cheng, W., Luo, M., Zeng, L., et al. (2022). Lifespan-based garbage collection to improve SSD\u2019s reliability and performance. Journal of Parallel and Distributed Computing<\/i>, 164<\/i>, 28-39. DOI<\/a><\/div>\n
Juenger, D., Kobus, R., Mueller, A., et al. (2022). General-purpose GPU hashing data structures and their application in accelerated genomics. JOURNAL OF PARALLEL AND DISTRIBUTED COMPUTING<\/i>, 163<\/i>, 256-268. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Cascitti, J., Niebler, S., Mueller, A., Schmidt, B. (2022). RNACache: A scalable approach to rapid transcriptomic read mapping using locality sensitive hashing. JOURNAL OF COMPUTATIONAL SCIENCE<\/i>, 60<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Xu, K., Duan, X., Muller, A., et al. (2022). FMapper: Scalable read mapper based on succinct hash index on SunWay TaihuLight. JOURNAL OF PARALLEL AND DISTRIBUTED COMPUTING<\/i>, 161<\/i>, 72-82. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gao, P., Duan, X., Schmidt, B., et al. (2022). Optimization of Reactive Force Field Simulation: Refactor, Parallelization, and Vectorization for Interactions. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 33<\/i>(2), 359-373. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Niebler, S., Miltenberger, A., Schmidt, B., Spichtinger, P. (2022). Automated detection and classification of synoptic-scale fronts from atmospheric data grids. WEATHER AND CLIMATE DYNAMICS<\/i>, 3<\/i>(1), 113-137. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Calandra, I., Bob, K., Merceron, G., et al. (2022). Surface texture analysis in Toothfrax and MountainsMap\u00ae SSFA module: Different software packages, different results?. PEER COMMUNITY JOURNAL<\/i>, 2<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Cerrato, M., Coronel, A. V., K\u00f6ppel, M., et al. (2022). Fair Interpretable Representation Learning with Correction Vectors. CoRR<\/i>, abs\/2202.03078<\/i>. Author\/Publisher URL<\/a><\/div>\n
Cerrato, M., K\u00f6ppel, M., Esposito, R., Kramer, S. (2022). Invariant Representations with Stochastically Quantized Neural Networks. CoRR<\/i>, abs\/2208.02656<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Cerrato, M., K\u00f6ppel, M., Segner, A., Kramer, S. (2022). Fair Group-Shared Representations with Normalizing Flows. CoRR<\/i>, abs\/2201.06336<\/i>. Author\/Publisher URL<\/a><\/div>\n
Cerrato, M., K\u00f6ppel, M., Segner, A., Kramer, S. (2022). Fair Interpretable Learning via Correction Vectors. CoRR<\/i>, abs\/2201.06343<\/i>. Author\/Publisher URL<\/a><\/div>\n
Garcon, A., Vexler, J., Budker, D., Kramer, S. (2022). Deep neural networks to recover unknown physical parameters from oscillating time series. PLOS ONE<\/i>, 17<\/i>(5). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hillen, B., Lopez, D. A., Sch\u00f6mer, E., et al. (2022). Towards Exercise Radiomics: Deep Neural Network-Based Automatic Analysis of Thermal Images Captured During Exercise. IEEE Journal of Biomedical and Health Informatics<\/i>, 1-11. DOI<\/a><\/div>\n
Mueller, A., Schmidt, B., Membarth, R., et al. (2022). AnySeq\/GPU: A Novel Approach for Faster Sequence Alignment on GPUs. PROCEEDINGS OF THE 36TH ACM INTERNATIONAL CONFERENCE ON SUPERCOMPUTING, ICS 2022<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Henneberg, J. (2022). Towards Adaptive Storage Views in Virtual Memory. CoRR<\/i>, abs\/2209.01635<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., J\u00f6rz, S. (2022). The Easiest Way of Turning your Relational Database into a Blockchain – and the Cost of Doing So. CoRR<\/i>, abs\/2210.04484<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Zhang, H., Chang, Q., Yin, Z., et al. (2022). RabbitV: fast detection of viruses and microorganisms in sequencing data on multi-core architectures. Bioinform.<\/i>, 38<\/i>, 2932-2933.<\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
\n\n\t\n\t
\n
Pensel, L., and Kramer, S. (2022). Neural RELAGGS<\/i>. Author\/Publisher URL<\/a><\/div>\n
Xu, X., Yin, Z., Yan, L., et al. (2022). RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches. In openRxiv<\/i>. DOI<\/a><\/div>\n
Hauptmann, T., Kramer, S. (2022). A Fair Experimental Comparison of Neural Network Architectures for Latent Representations of Multi-Omics for Drug Response Prediction<\/i>. Author\/Publisher URL<\/a><\/div>\n
Brodehl, S., M\u00fcller, R., Sch\u00f6mer, E., et al. (2022). End-to-End Prediction of Lightning Events from Geostationary Satellite Images. In MDPI AG<\/i>. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
\n\n\t\n\t
\n
Schnur, R. (2022). Interactive Motion Planning in Mixed Reality<\/i> (E. Sch\u00f6mer and M. Wand, eds.) [Master\u2019s Thesis]. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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\n \n<\/jgu-base-image><\/div>\n\n\n\n
<\/jgu-base-heading>\n\n\n\n\n

Book chapters<\/h3>\n\t
\n\n\t\n\t
\n
Althaus, E., and Ziegler, S. (2021). Optimal Tree Decompositions Revisited: A Simpler Linear-Time FPT Algorithm. In C. Gentile, G. Stecca, and P. Ventura (eds.), Graphs and Combinatorial Optimization: from Theory to Applications: CTW2020 Proceedings<\/i> (pp. 67-78). Cham:Springer International Publishing. DOI<\/a><\/div>\n
Althaus, E., Hildebrandt, A., and Mosca, D. (2021). Learning Molecular Classes from Small Numbers of Positive Examples Using Graph Grammars. In Lecture Notes in Computer Science<\/i> (pp. 3-15). Springer International Publishing. DOI<\/a><\/div>\n
Gallenbacher, J. (2021). Besser rechnen mit Strom. In Abenteuer Informatik<\/i> (pp. 365-388). Berlin, Heidelberg:Springer Berlin Heidelberg. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
\n
Troebs, S., Hauptmann, T., Velmeden, D., et al. (2021). Convolutional Neural Networks Are Non-inferior To Expert Assessment For The Evaluation Of Left Ventricular Systolic Function And Mass In Chronic Heart Failure – Results From The Myovasc Study. CIRCULATION<\/i>, 144<\/i>. Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F., Priesterroth, A., Henneberg, J., Salkhordeh, R. (2021). AnyOLAP: Analytical Processing of Arbitrary Data-Intensive Applications without ETL. PROCEEDINGS OF THE VLDB ENDOWMENT<\/i>, 14<\/i>(12), 2823-2826. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Tsitsigkos, D., Lampropoulos, K., Bouros, P., et al. (2021). A Two-layer Partitioning for Non-point Spatial Data. 2021 IEEE 37th International Conference on Data Engineering (ICDE)<\/i>, 1787-1798. DOI<\/a><\/div>\n
Adesso, M. F., Wolpert, N., Schoemer, E. (2021). ConfusionTree-Pattern: A Hierarchical Design for an Efficient and Performant Multi-Class Pattern. 20TH IEEE INTERNATIONAL CONFERENCE ON MACHINE LEARNING AND APPLICATIONS (ICMLA 2021)<\/i>, 754-759. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Schnurbusch, D., W\u00fcschner, J., Ziegler, S. (2021). On Tamaki\u2019s Algorithm to Compute Treewidths. In D. Coudert and E. Natale (eds.), SEA<\/i> (Vols. 190, pp. 9:1-9:1). Schloss Dagstuhl – Leibniz-Zentrum f\u00fcr Informatik. Author\/Publisher URL<\/a><\/div>\n
Cascitti, J., Niebler, S., M\u00fcller, A., Schmidt, B. (2021). RNACache: Fast Mapping of RNA-Seq Reads to Transcriptomes Using MinHashing<\/i>. 367-381. DOI<\/a><\/div>\n
Dorn, S., Wolpert, N., Schoemer, E. (2021). Expansive Voronoi Tree: A Motion Planner for Assembly Sequence Planning. 2021 IEEE INTERNATIONAL CONFERENCE ON ROBOTICS AND AUTOMATION (ICRA 2021)<\/i>, 7880-7886. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Szabo, T., Pacak, A. (2021). Concise, Type-Safe, and Efficient Structural Diffing. PROCEEDINGS OF THE 42ND ACM SIGPLAN INTERNATIONAL CONFERENCE ON PROGRAMMING LANGUAGE DESIGN AND IMPLEMENTATION (PLDI \u201921)<\/i>, 406-419. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hegewald, R., Wolpert, N., Schoemer, E. (2021). Saliency Features for 3D CAD-Data in the Context of Sampling-Based Motion Planning. 2021 IEEE INTERNATIONAL CONFERENCE ON ROBOTICS AND AUTOMATION (ICRA 2021)<\/i>, 7858-7864. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Henneberg, J., Schuhknecht, F., Reutter, P., et al. (2021). Northlight: Declarative and Optimized Analysis of Atmospheric Datasets in SparkSQL. PROCEEDINGS OF THE 34TH INTERNATIONAL CONFERENCE ON SCIENTIFIC AND STATISTICAL DATABASE MANAGEMENT, SSDBM 2022<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A. K., Althaus, E., Hildebrandt, A. (2021). Privately Querying Privacy: Privacy Estimation with Guaranteed Privacy of User and Database Party<\/i>. 56-72. Author\/Publisher URL<\/a><\/div>\n
H\u00e4cker, C., Bouros, P., Chondrogiannis, T., Althaus, E. (2021). Most Diverse Near-Shortest Paths<\/i>. 229-239. Author\/Publisher URL<\/a><\/div>\n
Kobus, R., Mueller, A., Juenger, D., et al. (2021). MetaCache-GPU: Ultra-Fast Metagenomic Classification. 50TH INTERNATIONAL CONFERENCE ON PARALLEL PROCESSING<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kramer, S. (2021). Myths and Misconceptions about Machine Learning and How They Are Related to Software Engineering. In R. Ali, H. Kaindl, and L. A. Maciaszek (eds.), Proceedings of the 16th International Conference on Evaluation of Novel Approaches to Software Engineering, ENASE 2021, Online Streaming, April 26-27, 2021<\/i> (pp. 5-5). SCITEPRESS.<\/div>\n
Kramer, S. (2021). Myths and Misconceptions about Machine Learning and How They Are Related to Software Engineering. In J. Filipe, M. Smialek, A. Brodsky, and S. Hammoudi (eds.), Proceedings of the 23rd International Conference on Enterprise Information Systems, ICEIS 2021, Online Streaming, April 26-28, 2021, Volume 1<\/i> (pp. 7-7). SCITEPRESS.<\/div>\n
Li, W., Abels, P., Ahmadi, Z., et al. (2021). Topic-Guided Knowledge Graph Construction for Argument Mining. In L. Chen and B. Fern\u00e1ndez-Manj\u00f3n (eds.), 2021 IEEE International Conference on Big Knowledge, ICBK 2021, Auckland, New Zealand, December 7-8, 2021<\/i> (pp. 315-322). IEEE. DOI<\/a><\/div>\n
Mehmeti-G\u00f6pel, C. H. X. A., Hartmann, D., Wand, M. (2021). Ringing ReLUs: Harmonic Distortion Analysis of Nonlinear Feedforward Networks. ICLR<\/i>. Author\/Publisher URL<\/a><\/div>\n
Oliver, N., P\u00e9rez-Cruz, F., Kramer, S., \u2026 Lozano, J. A. (eds.). (2021). Machine Learning and Knowledge Discovery in Databases. Research Track – European Conference, ECML PKDD 2021, Bilbao, Spain, September 13-17, 2021, Proceedings, Part I<\/i>. 12975<\/i>. DOI<\/a><\/div>\n
Oliver, N., P\u00e9rez-Cruz, F., Kramer, S., \u2026 Lozano, J. A. (eds.). (2021). Machine Learning and Knowledge Discovery in Databases. Research Track – European Conference, ECML PKDD 2021, Bilbao, Spain, September 13-17, 2021, Proceedings, Part II<\/i>. 12976<\/i>. DOI<\/a><\/div>\n
Oliver, N., P\u00e9rez-Cruz, F., Kramer, S., \u2026 Lozano, J. A. (eds.). (2021). Machine Learning and Knowledge Discovery in Databases. Research Track – European Conference, ECML PKDD 2021, Bilbao, Spain, September 13-17, 2021, Proceedings, Part III<\/i>. 12977<\/i>. DOI<\/a><\/div>\n
Salkhordeh, R., Kremer, K., Nagel, L., et al. (2021). Constant Time Garbage Collection in SSDs. NAS<\/i>, 1-9. Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. (2021). Talking Blockchains: The Perspective of a Database Researcher. 2021 IEEE 37TH INTERNATIONAL CONFERENCE ON DATA ENGINEERING WORKSHOPS (ICDEW 2021)<\/i>, 72-75. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Sharma, A., Dittrich, J., Agrawal, D. (2021). chainifyDB: How to get rid of your Blockchain and use your DBMS instead. 11th Conference on Innovative Data Systems Research, CIDR 2021, Virtual Event, January 11-15, 2021, Online Proceedings<\/i>. Author\/Publisher URL<\/a><\/div>\n
Szabo, T., Erdweg, S., Bergmann, G. (2021). Incremental Whole-Program Analysis in Datalog with Lattices. PROCEEDINGS OF THE 42ND ACM SIGPLAN INTERNATIONAL CONFERENCE ON PROGRAMMING LANGUAGE DESIGN AND IMPLEMENTATION (PLDI \u201921)<\/i>, 1-15. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Weissenberger, A., Schmidt, B. (2021). Accelerating JPEG Decompression on GPUs. 2021 IEEE 28TH INTERNATIONAL CONFERENCE ON HIGH PERFORMANCE COMPUTING, DATA, AND ANALYTICS (HIPC 2021)<\/i>, 121-130. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
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Burkhardt, S., Brugger, J., Wagner, N., et al. (2021). Rule Extraction From Binary Neural Networks With Convolutional Rules for Model Validation. Frontiers in Artificial Intelligence<\/i>, 4<\/i>. DOI<\/a><\/div>\n
Bouros, P., Mamoulis, N., Tsitsigkos, D., Terrovitis, M. (2021). In-Memory Interval Joins. VLDB JOURNAL<\/i>, 30<\/i>(4), 667-691. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Yin, Z., Xu, X., Zhang, J., et al. (2021). RabbitMash: accelerating hash-based genome analysis on modern multi-core architectures. Bioinformatics<\/i>, 37<\/i>(6), 873-875. DOI<\/a><\/div>\n
Dratsch, T., Korenkov, M., Zopfs, D., et al. (2021). Practical applications of deep learning: classifying the most common categories of plain radiographs in a PACS using a neural network. EUROPEAN RADIOLOGY<\/i>, 31<\/i>(4), 1812-1818. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Ringe, K. I., Vo Chieu, V. D., Wacker, F., et al. (2021). Fully automated detection of primary sclerosing cholangitis (PSC)-compatible bile duct changes based on 3D magnetic resonance cholangiopancreatography using machine learning. EUROPEAN RADIOLOGY<\/i>, 31<\/i>(4), 2482-2489. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Winther, H., Hundt, C., Ringe, K. I., et al. (2021). A 3D Deep Neural Network for Liver Volumetry in 3T Contrast-Enhanced MRI. ROFO-FORTSCHRITTE AUF DEM GEBIET DER RONTGENSTRAHLEN UND DER BILDGEBENDEN VERFAHREN<\/i>, 193<\/i>(03), 305-314. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Werner, S., Galliot, A., Pichot, F., et al. (2021). NOseq: amplicon sequencing evaluation method for RNA m<SUP>6<\/SUP>A sites after chemical deamination. NUCLEIC ACIDS RESEARCH<\/i>, 49<\/i>(4). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Yin, Z., Zhang, H., Liu, M., et al. (2021). RabbitQC: high-speed scalable quality control for sequencing data. BIOINFORMATICS<\/i>, 37<\/i>(4), 573-574. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Dasu, T., Kanza, Y., et al. (2021). The Fourth ACM SIGSPATIAL Workshop on Location-Based Recommendations, Geosocial Networks and Geoadvertising. SIGSPATIAL Special<\/i>, 12<\/i>(3), 7-10. DOI<\/a><\/div>\n
Garcon, A., Vexler, J., Budker, D., Kramer, S. (2021). Deep Neural Networks to Recover Unknown Physical Parameters from Oscillating Time Series<\/i>. Author\/Publisher URL<\/a><\/div>\n
Abels, P., Ahmadi, Z., Burkhardt, S., et al. (2021). Focusing Knowledge-based Graph Argument Mining via Topic Modeling. CoRR<\/i>, abs\/2102.02086<\/i>. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Dousti, M. S., Kramer, S. (2021). Fast Private Parameter Learning and Evaluation for Sum-Product Networks. CoRR<\/i>, abs\/2104.07353<\/i>.<\/div>\n
Cheng, W., Deng, S., Zeng, L., et al. (2021). AIOC2: A deep Q-learning approach to autonomic I\/O congestion control in Lustre. Parallel Comput.<\/i>, 108<\/i>, 102855-102855. DOI<\/a><\/div>\n
Ebrahimi, S., Salkhordeh, R., Osia, S. A., et al. (2021). RC-RNN: Reconfigurable Cache Architecture for Storage Systems Using Recurrent Neural Networks. CoRR<\/i>, abs\/2111.03297<\/i>.<\/div>\n
Hartmann, D., Franzen, D., Brodehl, S. (2021). Studying the Evolution of Neural Activation Patterns During Training of Feed-Forward ReLU Networks. FRONTIERS IN ARTIFICIAL INTELLIGENCE<\/i>, 4<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Henneberg, J., Schuhknecht, F. M., Reutter, P., et al. (2021). Northlight: Declarative and Optimized Analysis of Atmospheric Datasets in SparkSQL. CoRR<\/i>, abs\/2109.08053<\/i>. Author\/Publisher URL<\/a><\/div>\n
Raza, A., Kramer, S. (2021). Pattern Sampling for Shapelet-based Time Series Classification. CoRR<\/i>, abs\/2102.08498<\/i>. Author\/Publisher URL<\/a><\/div>\n
Siekiera, J., Kramer, S. (2021). Deep Unsupervised Identification of Selected SNPs between Adapted Populations on Pool-seq Data. CoRR<\/i>, abs\/2101.00004<\/i>. Author\/Publisher URL<\/a><\/div>\n
Wei\u00dfenberger, A., Schmidt, B. (2021). Accelerating JPEG Decompression on GPUs. CoRR<\/i>, abs\/2111.09219<\/i>.<\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
\n\n\t\n\t
\n
Bob, K., Teschner, D., Kemmer, T., et al. (2021). Locality-sensitive hashing enables signal classification in high-throughput mass spectrometry raw data at scale. In openRxiv<\/i>. DOI<\/a><\/div>\n
Hildebrandt, A.-K., Bob, K., Teschner, D., et al. (2021). CorCast: A Distributed Architecture for Bayesian Epidemic Nowcasting and its Application to District-Level SARS-CoV-2 Infection Numbers in Germany. In openRxiv<\/i>. DOI<\/a><\/div>\n
Christodoulou, G., Bouros, P., Mamoulis, N. (2021). HINT: A Hierarchical Index for Intervals in Main Memory<\/i>. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Dousti, M. S., Kramer, S., Rassau, N. J. P. (2021). Fast Private Parameter Learning and Inference for Sum-Product Networks<\/i>. Author\/Publisher URL<\/a><\/div>\n
Kobus, R., M\u00fcller, A., J\u00fcnger, D., et al. (2021). MetaCache-GPU: Ultra-Fast Metagenomic Classification<\/i>.<\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
\n\n\t\n\t
\n
Kemmer, T. (2021). Space-efficient and exact system representations for the nonlocal protein electrostatics problem<\/i> (A. Hildebrandt, ed.) [PhD Thesis]. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Conference Papers<\/h3>\n\t
\n\n\t\n\t
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Qi, S., Bouros, P., Mamoulis, N. (2020). Top-k String Similarity Joins. 32nd International Conference on Scientific and Statistical Database Management<\/i>, 1-12. DOI<\/a><\/div>\n
Blumenstock, M., Fischer, F. (2020). A Constructive Arboricity Approximation Scheme. In A. Chatzigeorgiou, R. Dondi, H. Herodotou, et al. (eds.), Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)<\/i> (Vols. 12011, pp. 51-63). Springer, Cham. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Andr\u00e9s L\u00f3pez, D., Hillen, B., Simon, P., Sch\u00f6mer, E. (2020). Presentation | Deep learning based segmentation of uncovered body parts in thermal images during dynamic exercise<\/i>. Book of Abstracts<\/i>, 24-25. Author\/Publisher URL<\/a><\/div>\n
Andr\u00e9s L\u00f3pez, D., Hillen, B., Simon, P., Sch\u00f6mer, E. (2020). Presentation | Thermonet: Automatic Segmentation of Blood Vessel Patterns detected by Infrared Thermography during dynamic Exercise<\/i> (F. Dela, E. M\u00fcller, and E. Tsolakidis, eds.; Issue Book of Abstracts, pp. 127-127). Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Lampropoulos, K., Tsitsigkos, D., et al. (2020). Band Joins for Interval Data. In A. Bonifati, Y. Zhou, M. A. V. Salles, et al. (eds.), Proceedings of the 23rd International Conference on Extending Database Technology, EDBT 2020, Copenhagen, Denmark, March 30 – April 02, 2020<\/i> (pp. 443-446). OpenProceedings.org. DOI<\/a><\/div>\n
Burkhardt, S., Siekiera, J., Glodde, J., et al. (2020). Towards Identifying Drug Side Effects from Social Media Using Active Learning andCrowd Sourcing. Pacific Symposium on Biocomputing 2020, Fairmont Orchid, Hawaii, USA, January 3-7, 2020<\/i>, 319-330. Author\/Publisher URL<\/a><\/div>\n
Cerrato, M., K\u00f6ppel, M., Segner, A., et al. (2020). Fair pairwise learning to rank. In G. I. Webb, Z. Zhang, V. S. Tseng, et al. (eds.), 7th IEEE International Conference on Data Science and Advanced Analytics, DSAA 2020, Sydney, Australia, October 6-9, 2020<\/i> (pp. 729-738). IEEE. DOI<\/a><\/div>\n
Chopite, J. G., Hullin, M. B., Wand, M., Iseringhausen, J. (2020). Deep Non-Line-of-Sight Reconstruction. CVPR<\/i>, 957-966. Author\/Publisher URL<\/a><\/div>\n
Costa, C. F., Chondrogiannis, T., Nascimento, M. A., Bouros, P. (2020). RRAMEN: An Interactive Tool for Evaluating Choices and Changes in Transportation Networks. In A. Bonifati, Y. Zhou, M. A. V. Salles, et al. (eds.), Proceedings of the 23rd International Conference on Extending Database Technology, EDBT 2020, Copenhagen, Denmark, March 30 – April 02, 2020<\/i> (pp. 599-602). OpenProceedings.org. DOI<\/a><\/div>\n
Dorn, S., Wolpert, N., Schoemer, E. (2020). Voxel-based General Voronoi Diagram for Complex Data with Application on Motion Planning. 2020 IEEE INTERNATIONAL CONFERENCE ON ROBOTICS AND AUTOMATION (ICRA)<\/i>, 137-143. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Duan, X., Gao, P., Zhang, M., et al. (2020). Cell-List based Molecular Dynamics on Many-Core Processors: A Case Study on Sunway TaihuLight Supercomputer. PROCEEDINGS OF SC20: THE INTERNATIONAL CONFERENCE FOR HIGH PERFORMANCE COMPUTING, NETWORKING, STORAGE AND ANALYSIS (SC20)<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Duan, X., Gao, P., Zhang, M., et al. (2020). Neighbor-list-free Molecular Dynamics on Sunway TaihuLight Supercomputer. PROCEEDINGS OF THE 25TH ACM SIGPLAN SYMPOSIUM ON PRINCIPLES AND PRACTICE OF PARALLEL PROGRAMMING (PPOPP \u201920)<\/i>, 413-414. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Juenger, D., Kobus, R., Mueller, A., et al. (2020). WarpCore: A Library for fast Hash Tables on GPUs. 2020 IEEE 27TH INTERNATIONAL CONFERENCE ON HIGH PERFORMANCE COMPUTING, DATA, AND ANALYTICS (HIPC 2020)<\/i>, 11-20. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Keidel, S., Erdweg, S. (2020). A Systematic Approach to Abstract Interpretation of Program Transformations. In D. Beyer, D. Zufferey (eds.), VMCAI<\/i> (Vols. 11990, pp. 136-157). Springer. Author\/Publisher URL<\/a><\/div>\n
Kramer, S. (2020). A Brief History of Learning Symbolic Higher-Level Representations from Data (And a Curious Look Forward). In C. Bessiere (ed.), Proceedings of the Twenty-Ninth International Joint Conference on Artificial Intelligence, IJCAI 2020<\/i> (pp. 4868-4876). ijcai.org. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
M\u00fcller, A., Schmidt, B., Hildebrandt, A., et al. (2020). AnySeq: A High Performance Sequence Alignment Library based on Partial Evaluation. IPDPS<\/i>, 1030-1040. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Hundt, C. (2020). cuDTW plus plus : Ultra-Fast Dynamic Time Warping on CUDA-Enabled GPUs. EURO-PAR 2020: PARALLEL PROCESSING<\/i>, 12247<\/i>, 597-612. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Xu, K., Duan, X., Meng, X., et al. (2020). SWMapper: Scalable Read Mapper on SunWay TaihuLight. PROCEEDINGS OF THE 49TH INTERNATIONAL CONFERENCE ON PARALLEL PROCESSING, ICPP 2020<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
\n
Pedergnana, A., Calandra, I., Evans, A. A., et al. (2020). Polish is quantitatively different on quartzite flakes used on different worked materials. PLOS ONE<\/i>, 15<\/i>(12). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gao, P., Duan, X., Zhang, T., et al. (2020). Millimeter-Scale and Billion-Atom Reactive Force Field Simulation on Sunway Taihulight. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 31<\/i>(12), 2954-2967. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Pacak, A., Erdweg, S., Szab\u00f3, T. (2020). A systematic approach to deriving incremental type checkers. Proceedings of the ACM on Programming Languages<\/i>, 4<\/i>(OOPSLA), 1-28. DOI<\/a><\/div>\n
Abuin, J. M., Lopes, N., Ferreira, L., et al. (2020). Big Data in metagenomics: Apache Spark vs MPI. PLOS ONE<\/i>, 15<\/i>(10). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Rauterberg, F., Ziegler, S. (2020). Computing Euclidean Steiner trees over segments. EURO JOURNAL ON COMPUTATIONAL OPTIMIZATION<\/i>, 8<\/i>(3-4), 309-325. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Zannoni, N., Wikelski, M., Gagliardo, A., et al. (2020). Identifying volatile organic compounds used for olfactory navigation by homing pigeons. Sci. Rep.<\/i>, 10<\/i>(1), 15879. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Chondrogiannis, T., Bouros, P., Gamper, J., et al. (2020). Finding <i>k<\/i>-shortest paths with limited overlap. VLDB JOURNAL<\/i>, 29<\/i>(5), 1023-1047. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Tacke, M., Kochs, E. F., Mueller, M., et al. (2020). Machine learning for a combined electroencephalographic anesthesia index to detect awareness under anesthesia. PLoS One<\/i>, 15<\/i>(8), e0238249. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Niebler, S., Mueller, A., Hankeln, T., Schmidt, B. (2020). RainDrop: Rapid activation matrix computation for droplet-based single-cell RNA-seq reads. BMC BIOINFORMATICS<\/i>, 21<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Qi, S., Bouros, P., Mamoulis, N. (2020). Top-<i>k<\/i> spatial distance joins. GEOINFORMATICA<\/i>, 24<\/i>(3), 591-631. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hieronymus, M., Schmidt, B., B\u00f6ser, S. (2020). Reconstruction of Low Energy Neutrino Events with GPUs at IceCube. Computational Science \u2013 ICCS 2020<\/i>, 12137<\/i>, 118-131. DOI<\/a><\/div>\n
Kobus, R., Abuin, J. M., Mueller, A., et al. (2020). A big data approach to metagenomics for all-food-sequencing. BMC BIOINFORMATICS<\/i>, 21<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Lan, H., Meng, J., Hundt, C., et al. (2020). FeatherCNN: Fast Inference Computation with TensorGEMM on ARM Architectures. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 31<\/i>(3), 580-594. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Maehringer-Kunz, A., Wagner, F., Hahn, F., et al. (2020). Predicting survival after transarterial chemoembolization for hepatocellular carcinoma using a neural network: A Pilot Study. LIVER INTERNATIONAL<\/i>, 40<\/i>(3), 694-703. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Winther, H. B., Gutberlet, M., Hundt, C., et al. (2020). Deep semantic lung segmentation for tracking potential pulmonary perfusion biomarkers in chronic obstructive pulmonary disease (COPD): The multi-ethnic study of atherosclerosis COPD study. JOURNAL OF MAGNETIC RESONANCE IMAGING<\/i>, 51<\/i>(2), 571-579. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hellmann, S. L., Ripp, F., Bikar, S.-E., et al. (2020). Identification and quantification of meat product ingredients by whole-genome metagenomics (All-Food-Seq). EUROPEAN FOOD RESEARCH AND TECHNOLOGY<\/i>, 246<\/i>(1), 193-200. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Jungmann, F., Brodehl, S., Buhl, R., et al. (2020). Workflow-centred open-source fully automated lung volumetry in chest CT. CLINICAL RADIOLOGY<\/i>, 75<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Boer, D., Kramer, S. (2020). Secure Sum Outperforms Homomorphic Encryption in (Current) Collaborative Deep Learning. CoRR<\/i>, abs\/2006.02894<\/i>. Author\/Publisher URL<\/a><\/div>\n
Burkhardt, S., Brugger, J., Wagner, N., et al. (2020). Rule Extraction from Binary Neural Networks with Convolutional Rules for Model Validation. CoRR<\/i>, abs\/2012.08459<\/i>. Author\/Publisher URL<\/a><\/div>\n
J\u00fcnger, D., Kobus, R., M\u00fcller, A., et al. (2020). WarpCore: A Library for fast Hash Tables on GPUs. CoRR<\/i>, abs\/2009.07914<\/i>.<\/div>\n
Kaindl, H., Kramer, S. (2020). Towards Probability-based Safety Verification of Systems with Components from Machine Learning. CoRR<\/i>, abs\/2003.01155<\/i>. Author\/Publisher URL<\/a><\/div>\n
Kallenborn, F., Hildebrandt, A., Schmidt, B. (2020). CARE: Context-Aware Sequencing Read Error Correction. Bioinformatics<\/i>.<\/div>\n
Kobus, R., Abu\u00edn, J. M., M\u00fcller, A., et al. (2020). A big data approach to metagenomics for all-food-sequencing. BMC Bioinformatics<\/i>, 21<\/i>, 1-15.<\/div>\n
M\u00fcller, A., Schmidt, B., Hildebrandt, A., et al. (2020). AnySeq: A High Performance Sequence Alignment Library based on Partial Evaluation. arXiv preprint arXiv:2002.04561<\/i>.<\/div>\n
Pedergnana, A., Calandra, I., Bob, K., et al. (2020). Evaluating the microscopic effect of brushing stone tools as a cleaning procedure. Quaternary International<\/i>.<\/div>\n
Raza, A., Kramer, S. (2020). Accelerating pattern-based time series classification : a linear time and space string mining approach. Knowledge and information systems<\/i>, 62<\/i>, Seiten: 1113-1141. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Hildebrandt, A. (2020). Deep learning in next-generation sequencing. Drug Discovery Today<\/i>.<\/div>\n
Siekiera, J., K\u00f6ppel, M., Simpson, E., et al. (2020). Ranking Creative Language Characteristics in Small Data Scenarios. CoRR<\/i>, abs\/2010.12613<\/i>. Author\/Publisher URL<\/a><\/div>\n
Werner, S., Schmidt, L., Marchand, V., et al. (2020). Machine learning of reverse transcription signatures of variegated polymerases allows mapping and discrimination of methylated purines in limited transcriptomes. Nucleic acids research<\/i>, 48<\/i>, 3734-3746.<\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
\n\n\t\n\t
\n
Boer, D., and Kramer, S. (2020). Secure Sum Outperforms Homomorphic Encryption in (Current) Collaborative Deep Learning<\/i>. Author\/Publisher URL<\/a><\/div>\n
Tsitsigkos, D., Lampropoulos, K., Bouros, P., et al. (2020). A Two-level Spatial In-Memory Index<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
\n\n\t\n\t
\n
Blumenstock, M. A. D. (2020). Pseudoforest Partitions and the Approximation of Connected Subgraphs of High Density<\/i> [PhD Thesis]. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schnur, R. (2020). Optimierung des adiabatischen Lichtleiters f\u00fcr das Wavelength-shifting Optical Module<\/i> (E. Sch\u00f6mer and S. B\u00f6ser, eds.) [Undergraduate Dissertation]. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
\n\n\t\n\t
\n
Boer, D., Ahmadi, Z., Kramer, S. (2019). Privacy preserving client\/vertical-servers classification. In C. Alzate (ed.), ECML PKDD 2018 Workshops : MIDAS 2018 and PAP 2018, Dublin, Ireland, September 10-14, 2018, Proceedings<\/i> (pp. Seiten: 125-140). Cham:Springer International Publishing. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Hildebrandt, A. (2019). Dedicated Bioinformatics Analysis Hardware. In Encyclopedia of Bioinformatics and Computational Biology<\/i> (pp. 1142-1150). Academic Press.<\/div>\n
Vexler, J., Kramer, S. (2019). Integrating LSTMs with Online Density Estimation for the Probabilistic Forecast of Energy Consumption<\/i> (Vols. 11828, pp. 533-543). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Williams, J., St\u00f6nner, C., Edtbauer, A., et al. (2019). What can we learn from the air chemistry of crowds?. In A. Hansel (ed.), 8th International Conference on Proton Transfer Reaction Mass Spectrometry and its Applications (PTRMS 2019)<\/i> (pp. Seiten: 121-123). Innsbruck:innsbruck university press.<\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
\n
Kobus, R., J\u00fcnger, D., Hundt, C., Schmidt, B. (2019, August 5). Gossip: Efficient Communication Primitives for Multi-GPU Systems. Proceedings of the 48th International Conference on Parallel Processing<\/i>. Published. ICPP 2019: 48th International Conference on Parallel Processing. DOI<\/a><\/div>\n
Yin, Z., Zhang, T., Muller, A., et al. (2019). Efficient Parallel Sort on AVX-512-Based Multi-Core and Many-Core Architectures. 2019 IEEE 21st International Conference on High Performance Computing and Communications; IEEE 17th International Conference on Smart City; IEEE 5th International Conference on Data Science and Systems (HPCC\/SmartCity\/DSS)<\/i>, 168-176. DOI<\/a><\/div>\n
B\u00fcren, F., J\u00fcnger, D., Kobus, R., et al. (2019, June 17). Suffix Array Construction on Multi-GPU Systems. Proceedings of the 28th International Symposium on High-Performance Parallel and Distributed Computing<\/i>. HPDC \u201919: The 28th International Symposium on High-Performance Parallel and Distributed Computing. DOI<\/a><\/div>\n
Ahmadi, Z., Kramer, S. (2019). Modeling Multi-label Recurrence in Data Streams. In Y. Gao, R. M\u00f6ller, X. Wu, and R. Kotagiri (eds.), 2019 IEEE International Conference on Big Knowledge, ICBK 2019, Beijing, China, November 10-11, 2019<\/i> (pp. 9-16). IEEE. DOI<\/a><\/div>\n
Alzate, C., Monreale, A., Assem, H., \u2026 Sinn, M. (eds.). (2019). ECML PKDD 2018 Workshops – Nemesis 2018, UrbReas 2018, SoGood 2018, IWAISe 2018, and Green Data Mining 2018, Dublin, Ireland, September 10-14, 2018, Proceedings<\/i>. 11329<\/i>. DOI<\/a><\/div>\n
Bierwirth, B., Schwanecke, U., Gietzen, T., et al. (2019). SmartAirCargoTrailer : autonomous short distance transports in air cargo. Hamburg International Conference of Logistics (HICL) 2019<\/i>, 151-185. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Assent, I., Jeppesen, J., Toftegaard, T. S. (2019). Processing Satellite Imagery for Decision-Making in Precision Agriculture. In P. Papotti (ed.), Proceedings of the Workshops of the EDBT\/ICDT 2019 Joint Conference, EDBT\/ICDT 2019, Lisbon, Portugal, March 26, 2019<\/i> (Vols. 2322). CEUR-WS.org. Author\/Publisher URL<\/a><\/div>\n
Chondrogiannis, T., Nascimento, M. A., Bouros, P. (2019). Relative Reachability Analysis as a Tool for Urban Mobility Planning (Position Paper). PROCEEDINGS OF THE 12TH INTERNATIONAL WORKSHOP ON COMPUTATIONAL TRANSPORTATION SCIENCE, IWCTS 2019<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hartmann, D., Wand, M. (2019). Progressive Stochastic Binarization of Deep Networks. EMC2@NeurIPS<\/i>, 31-35. Author\/Publisher URL<\/a><\/div>\n
Hochthurn, T., Gallenbacher, J. (2019). Innovative Gestaltung und Einsatz von Erkl\u00e4rvideos im Informatikunterricht. In A. Pasternak (ed.), Informatik f\u00fcr alle, 18. GI-Fachtagung Informatik und Schule, INFOS 2019, 16.-18. September 2019, Dortmund: Vol. P-288<\/i> (pp. 221-230). Gesellschaft f\u00fcr Informatik. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
J\u00f6rdens, T., Gallenbacher, J. (2019). Quadrologik – Modularisierung von Schaltnetzen und Schaltwerken. In A. Pasternak (ed.), Informatik f\u00fcr alle, 18. GI-Fachtagung Informatik und Schule, INFOS 2019, 16.-18. September 2019, Dortmund: Vol. P-288<\/i> (pp. 379-379). Gesellschaft f\u00fcr Informatik. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
K\u00f6ppel, M., Segner, A., Wagener, M., et al. (2019). Pairwise Learning to Rank by Neural Networks Revisited: Reconstruction, Theoretical Analysis and Practical Performance. In U. Brefeld, \u00c9lisa Fromont, A. Hotho, et al. (eds.), ECML\/PKDD (3)<\/i> (Vols. 11908, pp. 237-252). Springer. Author\/Publisher URL<\/a><\/div>\n
Pacak, A., Erdweg, S. (2019). Generating incremental type services. In O. Nierstrasz, J. Gray, B. C. D. S. Oliveira (eds.), SLE<\/i> (pp. 197-201). ACM. Author\/Publisher URL<\/a><\/div>\n
Pensel, L., Kramer, S. (2019). Forecast of Study Success in the STEM Disciplines Based Solely on Academic Records. In P. Cellier, K. Driessens (eds.), PKDD\/ECML Workshops (1)<\/i> (Vols. 1167, pp. 647-657). Springer. Author\/Publisher URL<\/a><\/div>\n
Portaneri, C., Alliez, P., Hemmer, M., et al. (2019). Cost-Driven Framework for Progressive Compression of Textured Meshes. PROCEEDINGS OF THE 10TH ACM MULTIMEDIA SYSTEMS CONFERENCE (ACM MMSYS\u201919)<\/i>, 175-188. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Saha, S., Sarkar, D., Kramer, S. (2019). Exploring Multi-Objective Optimization for Multi-Label Classifier Ensembles. IEEE Congress on Evolutionary Computation, CEC 2019, Wellington, New Zealand, June 10-13, 2019<\/i>, 2753-2760. DOI<\/a><\/div>\n
Sharma, A., Schuhknecht, F. M., Agrawal, D., Dittrich, J. (2019). Blurring the Lines between Blockchains and Database Systems: the Case of Hyperledger Fabric. SIGMOD \u201919: PROCEEDINGS OF THE 2019 INTERNATIONAL CONFERENCE ON MANAGEMENT OF DATA<\/i>, 105-122. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Tsitsigkos, D., Bouros, P., Mamoulis, N., Terrovitis, M. (2019). Parallel In-Memory Evaluation of Spatial Joins. 27TH ACM SIGSPATIAL INTERNATIONAL CONFERENCE ON ADVANCES IN GEOGRAPHIC INFORMATION SYSTEMS (ACM SIGSPATIAL GIS 2019)<\/i>, 516-519. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Weissenberger, A., Schmidt, B. (2019). Massively Parallel ANS Decoding on GPUs. PROCEEDINGS OF THE 48TH INTERNATIONAL CONFERENCE ON PARALLEL PROCESSING (ICPP 2019)<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Yin, Z., Zhang, H., Xu, K., et al. (2019). XLCS: A New Bit-Parallel Longest Common Subsequence Algorithm on Xeon Phi Clusters. In Z. Xiao, L. T. Yang, P. Balaji, et al. (eds.), HPCC\/SmartCity\/DSS<\/i> (pp. 1477-1483). IEEE. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
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Jiang, P., Luo, J., Wang, Y., et al. (2019). kmcEx: memory-frugal and retrieval-efficient encoding of counted <i>k<\/i>-mers. BIOINFORMATICS<\/i>, 35<\/i>(23), 4871-4878. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Keidel, S., Erdweg, S. (2019). Sound and reusable components for abstract interpretation. Proceedings of the ACM on Programming Languages<\/i>, 3<\/i>(OOPSLA), 1-28. DOI<\/a><\/div>\n
Salvaneschi, G., K\u00f6hler, M., Sokolowski, D., et al. (2019). Language-integrated privacy-aware distributed queries. Proceedings of the ACM on Programming Languages<\/i>, 3<\/i>(OOPSLA), 1-30. DOI<\/a><\/div>\n
Niebler, S., Schoemer, E., Tjaden, H., et al. (2019). Projection-based improvement of 3D reconstructions from motion-impaired dental cone beam CT data. MEDICAL PHYSICS<\/i>, 46<\/i>(10), 4470-4480. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Theocharidis, K., Liagouris, J., Mamoulis, N., et al. (2019). SRX: efficient management of spatial RDF data. VLDB JOURNAL<\/i>, 28<\/i>(5), 703-733. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
dos Santos, D. P., Brodehl, S., Baessler, B., et al. (2019). Structured report data can be used to develop deep learning algorithms: a proof of concept in ankle radiographs. INSIGHTS INTO IMAGING<\/i>, 10<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Mamoulis, N. (2019). Spatial joins. SIGSPATIAL Special<\/i>, 11<\/i>(1), 13-21. DOI<\/a><\/div>\n
Tjaden, H., Schwanecke, U., Schoemer, E., Cremers, D. (2019). A Region-Based Gauss-Newton Approach to Real-Time Monocular Multiple Object Tracking. IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE<\/i>, 41<\/i>(8), 1797-1812. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Zhang, J., Lan, H., Chan, Y., et al. (2019). BGSA: a bit-parallel global sequence alignment toolkit for multi-core and many-core architectures. BIOINFORMATICS<\/i>, 35<\/i>(13), 2306-2308. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Calandra, I., Schunk, L., Bob, K., et al. (2019). The effect of numerical aperture on quantitative use-wear studies and its implication on reproducibility. SCIENTIFIC REPORTS<\/i>, 9<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
dos Santos, D. P., Giese, D., Brodehl, S., et al. (2019). Medical students\u2019 attitude towards artificial intelligence: a multicentre survey. EUROPEAN RADIOLOGY<\/i>, 29<\/i>(4), 1640-1646. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gietzen, T., Brylka, R., Achenbach, J., et al. (2019). A method for automatic forensic facial reconstruction based on dense statistics of soft tissue thickness. PLOS ONE<\/i>, 14<\/i>(1). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Renz, M., Sacharidis, D. (2019). LocalRec 2018 workshop report the second ACM SIGSPATIAL workshop on recommendations for location-based services and social networks <sup>*<\/sup> Seattle, Washington, USA – November 6, 2018. SIGSPATIAL Special<\/i>, 10<\/i>(3), 23-25. DOI<\/a><\/div>\n
Kallenborn, F., Hundt, C., Boeser, S., Schmidt, B. (2019). Massively parallel computation of atmospheric neutrino oscillations on CUDA-enabled accelerators. COMPUTER PHYSICS COMMUNICATIONS<\/i>, 234<\/i>, 235-244. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Ziegler, S. (2019). Optimal Tree Decompositions Revisited: A Simpler Linear-Time FPT Algorithm. CoRR<\/i>, abs\/1912.09144<\/i>.<\/div>\n
Bracevac, O., Salvaneschi, G., Erdweg, S., Mezini, M. (2019). Type-safe, Polyvariadic Event Correlation. CoRR<\/i>, abs\/1907.02990<\/i>.<\/div>\n
Burkhardt, S., Kramer, S. (2019). A Survey of Multi-Label Topic Models. SIGKDD Explor.<\/i>, 21<\/i>, 61-79. DOI<\/a><\/div>\n
Burkhardt, S., Kramer, S. (2019). Decoupling sparsity and smoothness in the Dirichlet variational autoencoder topic model. Journal of machine learning research<\/i>, 20<\/i>, Art. 131. Author\/Publisher URL<\/a><\/div>\n
Burkhardt, S., Kramer, S. (2019). Multi-label classification using stacked hierarchical Dirichlet processes with reduced sampling complexity. Knowledge and information systems<\/i>, 59<\/i>(1), Seiten: 93-115. Author\/Publisher URL<\/a><\/div>\n
Calandra, I., Schunk, L., Bob, K., et al. (2019). The effect of numerical aperture on quantitative use-wear studies and its implication on reproducibility. Scientific reports<\/i>, 9<\/i>, 1-10.<\/div>\n
Chamani, J. G., Dousti, M. S., Jalili, R., Papadopoulos, D. (2019). SESOS: A Verifiable Searchable Outsourcing Scheme for Ordered Structured Data in Cloud Computing. ISECURE-ISC INTERNATIONAL JOURNAL OF INFORMATION SECURITY<\/i>, 11<\/i>(1), 15-34. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (2019). Ohne Informatik keine Allgemeinbildung. Inform. Spektrum<\/i>, 42<\/i>, 88-96. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
K\u00f6ppel, M., Segner, A., Wagener, M., et al. (2019). Pairwise Learning to Rank by Neural Networks Revisited: Reconstruction, Theoretical Analysis and Practical Performance. CoRR<\/i>, abs\/1909.02768<\/i>.<\/div>\n
Schmidt, L., Werner, S., Kemmer, T., et al. (2019). Graphical workflow system for modification calling by machine learning of reverse transcription signatures. Frontiers in genetics<\/i>, 10<\/i>, 876-876.<\/div>\n
Schuhknecht, F. M., Sharma, A., Dittrich, J., Agrawal, D. (2019). ChainifyDB: How to Blockchainify any Data Management System. CoRR<\/i>, abs\/1912.04820<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
\n\n\t\n\t
\n
K\u00f6ppel, M., Segner, A., Wagener, M., et al. (2019). Pairwise Learning to Rank by Neural Networks Revisited: Reconstruction, Theoretical Analysis and Practical Performance<\/i>. Author\/Publisher URL<\/a><\/div>\n
Tsitsigkos, D., Bouros, P., Mamoulis, N., Terrovitis, M. (2019). Parallel In-Memory Evaluation of Spatial Joins<\/i>. Author\/Publisher URL<\/a><\/div>\n
Bra\u010devac, O., Salvaneschi, G., Erdweg, S., Mezini, M. (2019). Type-safe, Polyvariadic Event Correlation<\/i>. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Ziegler, S. (2019). Optimal Tree Decompositions Revisited: A Simpler Linear-Time FPT Algorithm. In CoRR: Vol. abs\/1912.09144<\/i>. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (2019). Abenteuer Informatik: Dauerausstellung im Foyer der TU Wien<\/i>. Wien, \u00d6sterreich:TU Wien. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (2019). Abenteuer Informatik: Dauerausstellung im Foyer der Universit\u00e4t Rostock<\/i>. Rostock:Universit\u00e4t Rostock. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Patents<\/h3>\n\t
\n\n\t\n\t
\n
Helm, M., Hauenschild, R., Tserovski, L., et al. (2019). Method for detecting known nucleotide modifications in an rna<\/i> (Patent).<\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
\n\n\t\n\t
\n
Mosca, D. (2019). Graph-Grammatiken zur Suche und Klassifikation von molekularen Strukturen<\/i> [PhD Thesis]. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
<\/div>\n<\/div>\n<\/div>\n<\/div><\/div>\n<\/jgu-base-section>\n
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Book chapters<\/h3>\n\t
\n\n\t\n\t
\n
Endler, S. (2018). Marathon. In A. Baca (ed.), Modelling and simulation in sport and exercise<\/i> (pp. Seiten: 169-186). London:Routledge.<\/div>\n
Endler, S., Flechsenhar, F., Schmidt-Arndt, F. (2018). Ver\u00e4nderungen des taktischen Verhaltens durch die Materialver\u00e4nderung im Tischtennis. In D. Link (ed.), Sportinformatik XII : 12. Symposium der dvs-Sektion<\/i> (pp. Seiten: 69-70). Hamburg:Feldhaus, Edition Czwalina.<\/div>\n
Kaindl, H., Kramer, S., Hoch, R. (2018). An inductive learning perspective on automated generation of feature models from given product specifications. In T. Berger (ed.), Proceedings of the 22nd International Systems and Software Product Line Conference. Volume 1 : Gothenburg, Sweden, September 10 – 14, 2018<\/i> (pp. Seiten: 25-30). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Rehn, P., Ahmadi, Z., Kramer, S. (2018). Forest of normalized trees : fast and accurate density estimation of streaming data. In F. Bonchi (ed.), 2018 IEEE 5th International Conference on Data Science and Advanced Analytics (DSAA)<\/i>. Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Shao, J., Yang, Q., Zhang, Z., et al. (2018). Graph clustering with local density-cut. In J. Pei (ed.), Database Systems for Advanced Applications : 23rd International Conference, DASFAA 2018, Gold Coast, QLD, Australia, May 21-24, 2018, Proceedings, Part I<\/i> (pp. Seiten: 187-202). Cham:Springer International Publishing. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Books<\/h3>\n\t
\n\n\t\n\t
\n
Parallel Programming<\/i>. (2018). Elsevier. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
\n
Xu, K., Kobus, R., Chan, Y., et al. (2018). SPECTR. Proceedings of the 47th International Conference on Parallel Processing<\/i>, 1-10. DOI<\/a><\/div>\n
Amorim, L. E. de S., Steindorfer, M. J., Erdweg, S., Visser, E. (2018). Declarative specification of indentation rules: a tooling perspective on parsing and pretty-printing layout-sensitive languages. In D. J. Pearce, T. Mayerhofer, and F. Steimann (eds.), SLE<\/i> (pp. 3-15). ACM. Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Mamoulis, N. (2018). Interval Count Semi-Joins. In M. H. B\u00f6hlen, R. Pichler, N. May, et al. (eds.), Proceedings of the 21st International Conference on Extending Database Technology, EDBT 2018, Vienna, Austria, March 26-29, 2018<\/i> (pp. 425-428). OpenProceedings.org. DOI<\/a><\/div>\n
Chondrogiannis, T., Bouros, P., Gamper, J., et al. (2018). Finding <i>k<\/i>-Dissimilar Paths with Minimum Collective Length. 26TH ACM SIGSPATIAL INTERNATIONAL CONFERENCE ON ADVANCES IN GEOGRAPHIC INFORMATION SYSTEMS (ACM SIGSPATIAL GIS 2018)<\/i>, 404-407. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., \u2026 Oliveira, B. C. D. S. (eds.). (2018). Proceedings of the 9th ACM SIGPLAN International Symposium on Scala, SCALA@ICFP 2018, St. Louis, MO, USA, September 28, 2018. SCALA@ICFP<\/i>.<\/div>\n
Gallenbacher, J. (2018). The Adventure of Computer Science – Understanding the Impact of Informatics on General Education and Designing the Living Environment. In H.-J. B\u00f6ckenhauer, D. Komm, W. Unger (eds.), Adventures Between Lower Bounds and Higher Altitudes – Essays Dedicated to Juraj Hromkovi\u010d on the Occasion of His 60th Birthday<\/i> (Vols. 11011, pp. 538-548). Springer. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Grewe, S., Erdweg, S., Pacak, A., Mezini, M. (2018). System Description: An Infrastructure for Combining Domain Knowledge with Automated Theorem Provers. In D. Sabel, P. Thiemann (eds.), PPDP<\/i> (pp. 24:1-24:1). ACM. Author\/Publisher URL<\/a><\/div>\n
Haffner, I., Schuhknecht, F. M., Dittrich, J. (2018). An Analysis and Comparison of Database Cracking Kernels. 14TH INTERNATIONAL WORKSHOP ON DATA MANAGEMENT ON NEW HARDWARE (DAMON 2018)<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Juenger, D., Hundt, C., Schmidt, B. (2018). WarpDrive: Massively Parallel Hashing on Multi-GPU Nodes. 2018 32ND IEEE INTERNATIONAL PARALLEL AND DISTRIBUTED PROCESSING SYMPOSIUM (IPDPS)<\/i>, 441-450. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kobus, R., Lamoth, A., Mueller, A., et al. (2018). cuBool: Bit-Parallel Boolean Matrix Factorization on CUDA-enabled Accelerators. 2018 IEEE 24TH INTERNATIONAL CONFERENCE ON PARALLEL AND DISTRIBUTED SYSTEMS (ICPADS 2018)<\/i>, 465-472. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kobus, R., Lamoth, A., M\u00fcller, A., et al. (2018). cuBool: bit-parallel Boolean Matrix Factorization on CUDA-enabled accelerators<\/i>. Seiten: 465-472. Author\/Publisher URL<\/a><\/div>\n
Konat, G., Erdweg, S., Visser, E. (2018). Scalable incremental building with dynamic task dependencies. In M. Huchard, C. K\u00e4stner, G. Fraser (eds.), ASE<\/i> (pp. 76-86). ACM. Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Dittrich, J., Linden, L. (2018). Adaptive Adaptive Indexing. 2018 IEEE 34TH INTERNATIONAL CONFERENCE ON DATA ENGINEERING (ICDE)<\/i>, 665-676. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Sharma, A., Schuhknecht, F. M., Dittrich, J. (2018). Accelerating Analytical Processing in MVCC using Fine-Granular High-Frequency Virtual Snapshotting. SIGMOD\u201918: PROCEEDINGS OF THE 2018 INTERNATIONAL CONFERENCE ON MANAGEMENT OF DATA<\/i>, 245-257. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Szab\u00f3, T., Kuci, E., Bijman, M., et al. (2018). Incremental overload resolution in object-oriented programming languages. In J. Dolby, W. G. J. Halfond, A. Mishra (eds.), ISSTA\/ECOOP Workshops<\/i> (pp. 27-33). ACM. Author\/Publisher URL<\/a><\/div>\n
Weissenberger, A., Schmidt, B. (2018). Massively Parallel Huffman Decoding on GPUs. PROCEEDINGS OF THE 47TH INTERNATIONAL CONFERENCE ON PARALLEL PROCESSING<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Xu, K., Kobus, R., Chan, Y., et al. (2018). SPECTR: Scalable Parallel Short Read Error Correction on Multi-core and Many-core Architectures. PROCEEDINGS OF THE 47TH INTERNATIONAL CONFERENCE ON PARALLEL PROCESSING<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
\n
Lang-Yona, N., Pickersgill, D. A., Maurus, I., et al. (2018). Species Richness, rRNA Gene Abundance, and Seasonal Dynamics of Airborne Plant-Pathogenic Oomycetes. FRONTIERS IN MICROBIOLOGY<\/i>, 9<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Lei\u00dfa, R., Boesche, K., Hack, S., et al. (2018). AnyDSL: a partial evaluation framework for programming high-performance libraries. Proceedings of the ACM on Programming Languages<\/i>, 2<\/i>(OOPSLA), 1-30. DOI<\/a><\/div>\n
Szab\u00f3, T., Bergmann, G., Erdweg, S., Voelter, M. (2018). Incrementalizing lattice-based program analyses in Datalog. Proceedings of the ACM on Programming Languages<\/i>, 2<\/i>(OOPSLA), 1-29. DOI<\/a><\/div>\n
Bra\u010devac, O., Amin, N., Salvaneschi, G., et al. (2018). Versatile event correlation with algebraic effects. Proceedings of the ACM on Programming Languages<\/i>, 2<\/i>(ICFP), 1-31. DOI<\/a><\/div>\n
Keidel, S., Poulsen, C. B., Erdweg, S. (2018). Compositional soundness proofs of abstract interpreters. Proceedings of the ACM on Programming Languages<\/i>, 2<\/i>(ICFP), 1-26. DOI<\/a><\/div>\n
Wehking, J., Pickersgill, D. A., Bowers, R. M., et al. (2018). Community composition and seasonal changes of archaea in coarse and fine air particulate matter. BIOGEOSCIENCES<\/i>, 15<\/i>(13), 4205-4214. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Winther, H. B., Hundt, C., Schmidt, B., et al. (2018). Poor Correlation, Reproducibility, and Agreement Between Volumetric Versus Linear Epicardial Adipose Tissue Measurement. JACC-CARDIOVASCULAR IMAGING<\/i>, 11<\/i>(7), 1036-1038. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Fier, F., Augsten, N., Bouros, P., et al. (2018). Set Similarity Joins on MapReduce: An Experimental Survey. PROCEEDINGS OF THE VLDB ENDOWMENT<\/i>, 11<\/i>(10), 1110-1122. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Grewe, S., Erdweg, S., Pacak, A., et al. (2018). Exploration of language specifications by compilation to first-order logic. Science of Computer Programming<\/i>, 155<\/i>, 146-172. DOI<\/a><\/div>\n
Konat, G., Steindorfer, M. J., Erdweg, S., Visser, E. (2018). PIE: A Domain-Specific Language for Interactive Software Development Pipelines. The Art, Science, and Engineering of Programming<\/i>, 2<\/i>(3). DOI<\/a><\/div>\n
Zhang, H., Chan, Y., Fan, K., et al. (2018). Fast and efficient short read mapping based on a succinct hash index. BMC BIOINFORMATICS<\/i>, 19<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gonzalez-Dominguez, J., Hundt, C., Schmidt, B. (2018). parSRA: A framework for the parallel execution of short read aligners on compute clusters. JOURNAL OF COMPUTATIONAL SCIENCE<\/i>, 25<\/i>, 134-139. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Brinkmann, A., Kling, P., et al. (2018). Scheduling shared continuous resources on many-cores. Journal of Scheduling<\/i>, 21<\/i>, 77-92. DOI<\/a><\/div>\n
Bouros, P., Renz, M., Sacharidis, D. (2018). Localrec 2017 workshop report: the First ACM SIGSPATIAL Workshop on Recommendations for Location-Based Services and Social Networks. SIGSPATIAL Special<\/i>, 9<\/i>(3), 26-27. DOI<\/a><\/div>\n
Liu, Y., Schmidt, B. (2018). LightSpMV: Faster CUDA-Compatible Sparse Matrix-Vector Multiplication Using Compressed Sparse Rows. JOURNAL OF SIGNAL PROCESSING SYSTEMS FOR SIGNAL IMAGE AND VIDEO TECHNOLOGY<\/i>, 90<\/i>(1), 69-86. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Ahmadi, Z., Kramer, S. (2018). A label compression method for online multi-label classification. Pattern recognition letters<\/i>, 111<\/i>, Seiten: 64-71. Author\/Publisher URL<\/a><\/div>\n
Ahmadi, Z., Kramer, S. (2018). Modeling recurring concepts in data streams : a graph-based framework. Knowledge and information systems<\/i>, 55<\/i>(1), Seiten: 15-44. Author\/Publisher URL<\/a><\/div>\n
Ahmadi, Z., Kramer, S. (2018). Online Multi-Label Classification: A Label Compression Method. CoRR<\/i>, abs\/1804.01491<\/i>. Author\/Publisher URL<\/a><\/div>\n
Burkhardt, S., Kramer, S. (2018). Online multi-label dependency topic models for text classification. Machine learning<\/i>, 107<\/i>(5), Seiten: 859-886. Author\/Publisher URL<\/a><\/div>\n
Chan, Y., Xu, K., Lan, H., et al. (2018). MyPhi: Efficient Levenshtein Distance Computation on Xeon Phi Based Architectures. CURRENT BIOINFORMATICS<\/i>, 13<\/i>(5), 479-486. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Geilke, M., Karwath, A., Frank, E., Kramer, S. (2018). Online estimation of discrete, continuous, and conditional joint densities using classifier chains. Data mining and knowledge discovery<\/i>, 32<\/i>(3), Seiten: 561-603. Author\/Publisher URL<\/a><\/div>\n
Kemmer, T., Rjasanow, S., Hildebrandt, A. (2018). NESSie. jl\u2013Efficient and intuitive finite element and boundary element methods for nonlocal protein electrostatics in the Julia language. Journal of computational science<\/i>, 28<\/i>, 193-203.<\/div>\n
Konat, G., Steindorfer, M. J., Erdweg, S., Visser, E. (2018). PIE: A Domain-Specific Language for Interactive Software Development Pipelines. CoRR<\/i>, abs\/1803.10197<\/i>.<\/div>\n
Leissa, R., Boesche, K., Hack, S., et al. (2018). AnyDSL: A Partial Evaluation Framework for Programming High-Performance Libraries. PROCEEDINGS OF THE ACM ON PROGRAMMING LANGUAGES-PACMPL<\/i>, 2<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Ludwig, M., Hoffmann, K., Endler, S., et al. (2018). Measurement, prediction, and control of individual heart rate responses to exercise-basics and options for wearable devices. Frontiers in physiology<\/i>, 9<\/i>, Art. 778. Author\/Publisher URL<\/a><\/div>\n
Pelzer, T., Ullrich, B., Endler, S., et al. (2018). A biomechanical comparison of countermovement performance after short-term traditional and daily-undulated loaded vertical jump training. Journal of sports sciences<\/i>, 36<\/i>(16), Seiten: 1816-1826. DOI<\/a><\/div>\n
Saha, S., Mitra, S., Kramer, S. (2018). Exploring multiobjective optimization for multiview clustering. ACM transactions on knowledge discovery from data<\/i>, 12<\/i>(4), Art. 44. Author\/Publisher URL<\/a><\/div>\n
Sharma, A., Schuhknecht, F. M., Agrawal, D., Dittrich, J. (2018). How to Databasify a Blockchain: the Case of Hyperledger Fabric. CoRR<\/i>, abs\/1810.13177<\/i>. Author\/Publisher URL<\/a><\/div>\n
Sharma, A., Schuhknecht, F. M., Dittrich, J. (2018). The Case for Automatic Database Administration using Deep Reinforcement Learning. CoRR<\/i>, abs\/1801.05643<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
\n\n\t\n\t
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Konat, G., Steindorfer, M. J., Erdweg, S., and Visser, E. (2018). PIE: A Domain-Specific Language for Interactive Software Development Pipelines<\/i>. Author\/Publisher URL<\/a><\/div>\n
Chondrogiannis, T., Bouros, P., Gamper, J., et al. (2018). Finding k-Dissimilar Paths with Minimum Collective Length<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
\n\n\t\n\t
\n
Ahmadi, Z., Skowron, M., Stier, A., and Kramer, S. (2017). An in-depth experimental comparison of RNTNs and CNNs for sentence modeling. In A. Yamamoto (ed.), Discovery Science : 20th International Conference, DS 2017, Kyoto, Japan, October 1517, 2017, Proceedings<\/i> (pp. Seiten: 144-152). Cham:Springer International Publishing. Author\/Publisher URL<\/a><\/div>\n
Burkhardt, S., and Kramer, S. (2017). Multi-label classification using stacked hierarchical dirichlet processes with reduced sampling complexity. In X. Wu (ed.), 2017 IEEE International Conference on Big Knowledge : 9-10 August 2017, Hefei, China : proceedings<\/i> (pp. Seiten: 1-8). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Burkhardt, S., and Kramer, S. (2017). Online sparse collapsed hybrid variational-gibbs algorithm for hierarchical Dirichlet process topic models. In M. Ceci (ed.), Machine Learning and Knowledge Discovery in Databases : European Conference, ECML PKDD 2017, Skopje, Macedonia, September 18\u201322, 2017, Proceedings, Part II<\/i> (pp. Seiten: 189-204). Cham:Springer International Publishing. Author\/Publisher URL<\/a><\/div>\n
Endler, S., and Ostheimer, P. (2017). Bestimmung der aktuellen Laufgeschwindigkeit mit Hilfe von Sensordaten einer Smartwatch. In A. Schwirtz (ed.), Innovation & Technologie im Sport : 23. dvs-Hochschultag, M\u00fcnchen, 13.-15. September 2017 : Abstracts<\/i> (p. Seite: 126). Hamburg:Feldhaus, Edition Czwilina.<\/div>\n
Geilke, M., and Kramer, S. (2017). Privacy-preserving pattern mining on online density estimates. In X. Wu (ed.), 2017 IEEE International Conference on Big Knowledge : 9-10 August 2017, Hefei, China : proceedings<\/i> (pp. Seiten: 25-32). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A. K., Kemmer, T., and Hildebrandt, A. (2017). The Electromagnetic Nature of Protein-Protein Interactions. In Conductive Polymers – Electrical Interactions in Cell Biology and Medicine<\/i>. CRC Press.<\/div>\n
Karwath, A., Hubrich, M., and Kramer, S. (2017). Convolutional neural networks for the identification of regions of interest in PET scans : a study of representation learning for diagnosing Alzheimer\u2019s disease. In A. ten Teije (ed.), Artificial Intelligence in Medicine : 16th Conference on Artificial Intelligence in Medicine, AIME 2017, Vienna, Austria, June 21-24, 2017, Proceedings<\/i> (pp. Seiten: 316-321). Cham:Springer International Publishing. Author\/Publisher URL<\/a><\/div>\n
Kramer, S. (2017). Inductive Database Approach to Graphmining. In C. Sammut and G. I. Webb (eds.), Encyclopedia of Machine Learning and Data Mining<\/i> (pp. 641-642). Springer. DOI<\/a><\/div>\n
Liu, Y., and Schmidt, B. (2017). CUSHAW Suite: Parallel and Efficient Algorithms for NGS Read Alignment. In Algorithms for Next-Generation Sequencing Data<\/i> (pp. 203-233). Springer International Publishing. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Books<\/h3>\n\t
\n\n\t\n\t
\n
Schmidt, B., Gonzalez-Dominguez, J., Hundt, C., and Schlarb, M. (2017). Parallel Programming Concepts and Practice<\/i>. Morgan Kaufmann.<\/div>\n
Gallenbacher, J. (2017). Abenteuer Informatik<\/i>. Berlin, Heidelberg:Springer Berlin Heidelberg. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
\n
Ahmadi, Z., Stier, A., Skowron, M., Kramer, S. (2017). To Parse or Not to Parse: An Experimental Comparison of RNTNs and CNNs for Sentiment Analysis. In M. Dragoni and D. R. Recupero (eds.), Proceedings of the 3rd International Workshop at ESWC on Emotions, Modality, Sentiment Analysis and the Semantic Web co-located with 14th ESWC 2017, Portroz, Slovenia, May 28, 2017<\/i> (Vols. 1874). CEUR-WS.org. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Hildebrandt, A., Mosca, D. (2017). Graph Rewriting Based Search for Molecular Structures: Definitions, Algorithms, Hardness. Federation of International Conferences on Software Technologies: Applications and Foundations<\/i>, 43-59.<\/div>\n
Andr\u00e9s L\u00f3pez, D., Diensberg, B., Sch\u00f6mer, E., Schwanecke, U. (2017). VCIT \u2013 Visually corrected inertial tracking. Lecture Notes in Informatics (LNI), Proceedings – Series of the Gesellschaft fur Informatik (GI)<\/i>. DOI<\/a><\/div>\n
Chan, Y., Xu, K., Lan, H., et al. (2017). PUNAS: A Parallel Ungapped-Alignment-Featured Seed Verification Algorithm for Next-Generation Sequencing Read Alignment. 2017 31ST IEEE INTERNATIONAL PARALLEL AND DISTRIBUTED PROCESSING SYMPOSIUM (IPDPS)<\/i>, 52-61. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Chondrogiannis, T., Bouros, P., Gamper, J., Leser, U. (2017). Exact and Approximate Algorithms for Finding k-Shortest Paths with Limited Overlap. In V. Markl, S. Orlando, B. Mitschang, et al. (eds.), Proceedings of the 20th International Conference on Extending Database Technology, EDBT 2017, Venice, Italy, March 21-24, 2017<\/i> (pp. 414-425). OpenProceedings.org. DOI<\/a><\/div>\n
Duan, X., Xu, K., Chan, Y., et al. (2017). S-Aligner: Ultrascalable read mapping on Sunway Taihu Light. 2017 IEEE INTERNATIONAL CONFERENCE ON CLUSTER COMPUTING (CLUSTER)<\/i>, 36-46. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Flatt, M., \u2026 Erdweg, S. (eds.). (2017). Proceedings of the 16th ACM SIGPLAN International Conference on Generative Programming: Concepts and Experiences, GPCE 2017, Vancouver, BC, Canada, October 23-24, 2017. GPCE<\/i>.<\/div>\n
Gallenbacher, J. (2017). Allgemeinbildung in der digitalen, gestalteten Lebenswelt. In I. Diethelm (ed.), Informatische Bildung zum Verstehen und Gestalten der digitalen Welt, Proceedings der 17. GI-Fachtagung Informatik und Schule, INFOS 2017, 13.-15. September 2017, Oldenburg: Vol. P-274<\/i> (pp. 19-28). Author\/Publisher URL<\/a><\/div>\n
Gembalczyk, D., Schuhknecht, F. M., Dittrich, J. (2017). An Experimental Analysis of Different Key-Value Stores and Relational Databases. In B. Mitschang, D. Nicklas, F. Leymann, et al. (eds.), Datenbanksysteme f\u00fcr Business, Technologie und Web (BTW 2017), 17. Fachtagung des GI-Fachbereichs ,,Datenbanken und Informationssysteme” (DBIS), 6.-10. M\u00e4rz 2017, Stuttgart, Germany, Proceedings: Vol. P-265<\/i> (pp. 351-360). GI. Author\/Publisher URL<\/a><\/div>\n
Gietzen, T., Brylka, R., Schwanecke, U., Sch\u00f6mer, E. (2017). A Dense Statistical Model of Facial Soft Tissue Thickness. In M. Eibl, M. Gaedke (eds.), INFORMATIK 2017<\/i> (pp. 891-898). Gesellschaft f\u00fcr Informatik, Bonn. DOI<\/a><\/div>\n
Junger, D., Hundt, C., Gonzalez-Dominguez, J., Schmidt, B. (2017). Ultra-Fast Detection of Higher-Order Epistatic Interactions on GPUs. EURO-PAR 2016: PARALLEL PROCESSING WORKSHOPS<\/i>, 10104<\/i>, 421-432. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
J\u00f6rdens, T., Gallenbacher, J. (2017). Quadrologik – Modellbildung und Modularisierung auf Basis von Rechnertechnik. In I. Diethelm (ed.), Informatische Bildung zum Verstehen und Gestalten der digitalen Welt, Proceedings der 17. GI-Fachtagung Informatik und Schule, INFOS 2017, 13.-15. September 2017, Oldenburg: Vol. P-274<\/i> (pp. 267-276). Author\/Publisher URL<\/a><\/div>\n
Keidel, S., Erdweg, S. (2017). Toward abstract interpretation of program transformations. In S. Chiba, E. G. Boix, S. Marr (eds.), META@SPLASH<\/i> (pp. 1-5). ACM. Author\/Publisher URL<\/a><\/div>\n
Kuci, E., Erdweg, S., Bracevac, O., et al. (2017). A Co-contextual Type Checker for Featherweight Java . In P. M\u00fcller (ed.), ECOOP<\/i> (Vols. 74, pp. 18:1-18:1). Schloss Dagstuhl – Leibniz-Zentrum f\u00fcr Informatik. Author\/Publisher URL<\/a><\/div>\n
Lan, H., Liu, W., Liu, Y., Schmidt, B. (2017). SWhybrid: A Hybrid-Parallel Framework for Large-Scale Protein Sequence Database Search. 2017 31ST IEEE INTERNATIONAL PARALLEL AND DISTRIBUTED PROCESSING SYMPOSIUM (IPDPS)<\/i>, 42-51. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Peng, S., Zhang, X., Yang, S., et al. (2017). mD3DOCKxb: An Ultra-Scalable CPU-MIC Coordinated Virtual Screening Framework. 2017 17TH IEEE\/ACM INTERNATIONAL SYMPOSIUM ON CLUSTER, CLOUD AND GRID COMPUTING (CCGRID)<\/i>, 671-676. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Sacharidis, D., Bouros, P., Chondrogiannis, T. (2017). Finding The Most Preferred Path. 25TH ACM SIGSPATIAL INTERNATIONAL CONFERENCE ON ADVANCES IN GEOGRAPHIC INFORMATION SYSTEMS (ACM SIGSPATIAL GIS 2017)<\/i>. Published. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Tjaden, H., Schwanecke, U., Sch\u00f6mer, E. (2017). Real-Time Monocular Pose Estimation of 3D Objects Using Temporally Consistent Local Color Histograms. 2017 IEEE International Conference on Computer Vision (ICCV)<\/i>, 124-132. DOI<\/a><\/div>\n
Zimmermann, A., Dietrich, T., Maciel, P., Hildebrandt, A. (2017). Model-Based Dynamic Reliability Engineering for Hybrid Electric Vehicle Design. 2017 11TH ANNUAL IEEE INTERNATIONAL SYSTEMS CONFERENCE (SYSCON)<\/i>, 163-170. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
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Althaus, E., Beber, B., Damm, W., et al. (2017). Verification of linear hybrid systems with large discrete state spaces using counterexample-guided abstraction refinement. Science of Computer Programming<\/i>, 148<\/i>, 123-160. DOI<\/a><\/div>\n
Qi, S., Sacharidis, D., Bouros, P., Mamoulis, N. (2017). Snapshot and continuous points-based trajectory search. GEOINFORMATICA<\/i>, 21<\/i>(4), 669-701. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Juenger, D., Hundt, C., Gonzalez Dominguez, J., Schmidt, B. (2017). Speed and accuracy improvement of higher-order epistasis detection on CUDA-enabled GPUs. CLUSTER COMPUTING-THE JOURNAL OF NETWORKS SOFTWARE TOOLS AND APPLICATIONS<\/i>, 20<\/i>(3), 1899-1908. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Zhang, S., Wang, Z., Peng, Y., et al. (2017). Mapping of option pricing algorithms onto heterogeneous many-core architectures. JOURNAL OF SUPERCOMPUTING<\/i>, 73<\/i>(9), 3715-3737. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Mamoulis, N. (2017). A Forward Scan based Plane Sweep Algorithm for Parallel Interval Joins. PROCEEDINGS OF THE VLDB ENDOWMENT<\/i>, 10<\/i>(11), 1346-1357. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schroder, J., Wirawan, A., Schmidt, B., Papenfuss, A. T. (2017). CLOVE: classification of genomic fusions into structural variation events. BMC BIOINFORMATICS<\/i>, 18<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hundt, C., Schlarb, M., Schmidt, B. (2017). SAUCE: A web application for interactive teaching and learning of parallel programming. JOURNAL OF PARALLEL AND DISTRIBUTED COMPUTING<\/i>, 105<\/i>, 163-173. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Ripp, F., Koeppel, R., et al. (2017). AFS: identification and quantification of species composition by metagenomic sequencing. BIOINFORMATICS<\/i>, 33<\/i>(9), 1396-1398. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Ostermann, K. (2017). A Module-System Discipline for Model-Driven Software Development. The Art, Science, and Engineering of Programming<\/i>, 1<\/i>(2). DOI<\/a><\/div>\n
Latino, D. A. R. S., Wicker, J., G\u00fctlein, M., et al. (2017). Eawag-Soil in enviPath: a new resource for exploring regulatory pesticide soil biodegradation pathways and half-life data. Environ. Sci. Process. Impacts<\/i>, 19<\/i>(3), 449-464. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Dang, H.-V., Schmidt, B., Hildebrandt, A., et al. (2017). CUDA-enabled hierarchical ward clustering of protein structures based on the nearest neighbour chain algorithm (Reprinted from vol 30, pg 200-211, 2016). INTERNATIONAL JOURNAL OF HIGH PERFORMANCE COMPUTING APPLICATIONS<\/i>, 31<\/i>, 181-+.<\/div>\n
Endler, S., Hoffmann, S., Sterzing, B., et al. (2017). The PerPot simulated anaerobic threshold : a comparison to typical lactate-based thresholds. International journal of human movement and sports sciences<\/i>, 5<\/i>(1), Seiten: 9-15. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Ostermann, K. (2017). A Module-System Discipline for Model-Driven Software Development. CoRR<\/i>, abs\/1703.10895<\/i>.<\/div>\n
Gallenbacher, J. (2017). Allm\u00e4chtiger Computer!?. Abenteuer Informatik: IT zum Anfassen f\u00fcr alle von 9 bis 99\u2013vom Navi bis Social Media<\/i>, 389-410. Author\/Publisher URL<\/a><\/div>\n
Gribko, A., Hahlbrock, A., Strieth, S., et al. (2017). Disease-relevant signalling-pathways in head and neck cancer : Taspase1\u2019s proteolytic activity fine-tunes TFIIA function. Scientific reports<\/i>, 7<\/i>, Art. 14937. Author\/Publisher URL<\/a><\/div>\n
Gribko, A., Hahlbrock, A., Strieth, S., et al. (2017). Disease-relevant signalling-pathways in head and neck cancer: Taspase1\u2019s proteolytic activity fine-tunes TFIIA function. Scientific reports<\/i>, 7<\/i>, 1-10.<\/div>\n
Kobus, R., Hundt, C., M\u00fcller, A., Schmidt, B. (2017). Accelerating metagenomic read classification on CUDA-enabled GPUs. BMC Bioinformatics<\/i>, 18<\/i>(11), 10 S. Author\/Publisher URL<\/a><\/div>\n
Kolossa, D., Bin Azhar, M. A., Rasche, C., et al. (2017). Performance estimation using the fitness-fatigue model with Kalman filter feedback. International journal of computer science in sport<\/i>, 16<\/i>(2), Seiten: 117-129. Author\/Publisher URL<\/a><\/div>\n
Kuci, E., Erdweg, S., Bracevac, O., et al. (2017). A Co-contextual Type Checker for Featherweight Java (incl. Proofs). CoRR<\/i>, abs\/1705.05828<\/i>.<\/div>\n
M\u00fcller, A., Hundt, C., Hildebrandt, A., et al. (2017). MetaCache: context-aware classification of metagenomic reads using minhashing. Bioinformatics<\/i>, 33<\/i>, 3740-3748.<\/div>\n
Raza, A., Kramer, S. (2017). Ensembles of randomized time series shapelets provide improved accuracy while reducing computational costs. De.arXiv.org<\/i>, abs\/1702.0. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Hildebrandt, A. (2017). Next-generation sequencing: big data meets high performance computing. Drug discovery today<\/i>, 22<\/i>, 712-717.<\/div>\n
Sharma, A., Schuhknecht, F. M., Dittrich, J. (2017). Accelerating Analytical Processing in MVCC using Fine-Granular High-Frequency Virtual Snapshotting. CoRR<\/i>, abs\/1709.04284<\/i>. Author\/Publisher URL<\/a><\/div>\n
Wicker, J., Kramer, S. (2017). The best privacy defense is a good privacy offense : obfuscating a search engine user\u2019s profile. Data mining and knowledge discovery<\/i>, 31<\/i>(5), Seiten: 1419-1443. Author\/Publisher URL<\/a><\/div>\n
Winther, H. B., Hundt, C., Schmidt, B., et al. (2017). $\u03bd$-net: Deep Learning for Generalized Biventricular Cardiac Mass and Function Parameters. CoRR<\/i>, abs\/1706.04397<\/i>.<\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
\n\n\t\n\t
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Kuci, E., Erdweg, S., Bra\u010devac, O., et al. (2017). A Co-contextual Type Checker for Featherweight Java (incl. Proofs)<\/i>. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Ostermann, K. (2017). A Module-System Discipline for Model-Driven Software Development<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
\n\n\t\n\t
\n
Endler, S., and Ebert, J. (2016). Automatisierte Einteilung von Laufdaten in Trainingsmethoden mittels Machine Learning Algorithmen. In K. Witte (ed.), Sportinformatik XI : Jahrestagung der dvs-Sektion Sportinformatik 2016 in Magdeburg<\/i> (pp. Seiten: 23-28). Aachen:Shaker.<\/div>\n
Endler, S., and Friedrich, O. K. (2016). Determining reference speeds and heart rates for endurance running prescription in altitude profile. In L. Lamas (ed.), Proceedings of the 2016 International Association of Computer Science in Sport (IACSS) Conference<\/i> (pp. Seiten: 96-101). Brasilia, Brazil:.<\/div>\n
Geilke, M., Karwath, A., and Kramer, S. (2016). Online density estimation of heterogeneous data streams in higher dimensions. In P. Frasconi (ed.), Machine learning and knowledge discovery in databases : European Conference, ECML PKDD 2016, Riva del Garda, Italy, September 19-23, 2016 : proceedings. Part 1<\/i> (pp. Seiten: 65-80). Cham:Springer International Publishing. Author\/Publisher URL<\/a><\/div>\n
Raza, A., Wicker, J., and Kramer, S. (2016). Trading off accuracy for efficiency by randomized greedy warping. In Proceedings of the 31st Annual ACM Symposium on Applied Computing : Pisa, Italy, April 4-8, 2016<\/i> (pp. Seiten: 883-890). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Tjaden, H., Schwanecke, U., and Sch\u00f6mer, E. (2016). Real-Time Monocular Segmentation and Pose Tracking of Multiple Objects. In B. Leibe, J. Matas, N. Sebe, and M. Welling (eds.), Computer Vision \u2013 ECCV 2016: 14th European Conference, Amsterdam, The Netherlands, October 11\u201314, 2016, Proceedings, Part IV<\/i> (pp. 423-438). Cham:Springer International Publishing. DOI<\/a><\/div>\n
Wicker, J., Fenner, K., and Kramer, S. (2016). A hybrid machine learning and knowledge based approach to limit combinatorial explosion in biodegradation prediction. In J. L\u00e4ssig (ed.), Computational sustainability<\/i> (pp. Seiten: 75-97). Cham:Springer. Author\/Publisher URL<\/a><\/div>\n
Wicker, J., Tyukin, A., and Kramer, S. (2016). A nonlinear label compression and transformation method for multi-label classification using autoencoders. In J. Bailey (ed.), Advances in knowledge discovery and data mining : 20th Pacific-Asia Conference, PAKDD 2016, Auckland, New Zealand, April 19-22, 2016, Proceedings. Pt. I<\/i> (pp. Seiten: 328-340). Cham:Springer. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
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Kunkel, A., Rheinl\u00e4nder, A., Schiefer, C., et al. (2016, July 18). PIEJoin: Towards Parallel Set Containment Joins. Proceedings of the 28th International Conference on Scientific and Statistical Database Management<\/i>. Published. SSDBM \u201916: Conference on Scientific and Statistical Database Management. DOI<\/a><\/div>\n
Blumenstock, M. (2016). Fast Algorithms for Pseudoarboricity. 2016 Proceedings of the Eighteenth Workshop on Algorithm Engineering and Experiments (ALENEX)<\/i>, 113-126. DOI<\/a><\/div>\n
Aliaga, D. G., Demir, I., Benes, B., Wand, M. (2016). Inverse procedural modeling of 3D models for virtual worlds. SIGGRAPH Courses<\/i>, 16:1-16:1. Author\/Publisher URL<\/a><\/div>\n
Amorim, L. E. de S., Erdweg, S., Wachsmuth, G., Visser, E. (2016). Principled syntactic code completion using placeholders. In T. van der Storm, E. Balland, and D. Varr\u00f3 (eds.), SLE<\/i> (pp. 163-175). ACM. Author\/Publisher URL<\/a><\/div>\n
Bracevac, O., Erdweg, S., Salvaneschi, G., Mezini, M. (2016). CPL: a core language for cloud computing. In L. Fuentes, D. S. Batory, and K. Czarnecki (eds.), MODULARITY<\/i> (pp. 94-105). ACM. Author\/Publisher URL<\/a><\/div>\n
Gabriel, T., Hildebrandt, A., Menck, U. (2016). PFD Calculation Considering Imperfect Proof Tests. 15TH INTERNATIONAL SYMPOSIUM ON LOSS PREVENTION AND SAFETY PROMOTION (LOSS 2016)<\/i>, 48<\/i>, 637-642. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Grewe, S., Erdweg, S., Mezini, M. (2016). Automating Proof Steps of Progress Proofs: Comparing Vampire and Dafny. In L. Kov\u00e1cs and A. Voronkov (eds.), Vampire@IJCAR<\/i> (Vols. 44, pp. 33-45). EasyChair. Author\/Publisher URL<\/a><\/div>\n
Grewe, S., Erdweg, S., Raulf, M., Mezini, M. (2016). Exploration of language specifications by compilation to first-order logic. In J. Cheney and G. Vidal (eds.), PPDP<\/i> (pp. 104-117). ACM. Author\/Publisher URL<\/a><\/div>\n
Kaessens, J. C., Wienbrandt, L., Schimmler, M., et al. (2016). Combining GPU and FPGA Technology for Efficient Exhaustive Interaction Analysis in GWAS. 2016 IEEE 27TH INTERNATIONAL CONFERENCE ON APPLICATION-SPECIFIC SYSTEMS, ARCHITECTURES AND PROCESSORS (ASAP)<\/i>, 170-175. Author\/Publisher URL<\/a><\/div>\n
Keidel, S., Pfeiffer, W., Erdweg, S. (2016). The IDE portability problem and its solution in Monto. In T. van der Storm, E. Balland, and D. Varr\u00f3 (eds.), SLE<\/i> (pp. 152-162). ACM. Author\/Publisher URL<\/a><\/div>\n
Konat, G., Erdweg, S., Visser, E. (2016). Bootstrapping domain-specific meta-languages in language workbenches. In B. Fischer and I. Schaefer (eds.), GPCE<\/i> (pp. 47-58). ACM. Author\/Publisher URL<\/a><\/div>\n
Kugelstadt, T., Sch\u00f6mer, E. (2016). Position and Orientation Based Cosserat Rods. Proceedings of the ACM SIGGRAPH\/Eurographics Symposium on Computer Animation<\/i>, 169-178. Author\/Publisher URL<\/a><\/div>\n
Li, C., Wand, M. (2016). Precomputed Real-Time Texture Synthesis with Markovian Generative Adversarial Networks. In B. Leibe, J. Matas, N. Sebe, and M. Welling (eds.), ECCV (3)<\/i> (Vols. 9907, pp. 702-716). Springer. Author\/Publisher URL<\/a><\/div>\n
Li, C., Wand, M. (2016). Combining Markov Random Fields and Convolutional Neural Networks for Image Synthesis. 2016 IEEE CONFERENCE ON COMPUTER VISION AND PATTERN RECOGNITION (CVPR)<\/i>, 2479-2486. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Lorenzen, F., Erdweg, S. (2016). Sound type-dependent syntactic language extension. In R. Bod\u00edk and R. Majumdar (eds.), POPL<\/i> (pp. 204-216). ACM. Author\/Publisher URL<\/a><\/div>\n
Szab\u00f3, T., Alperovich, S., Voelter, M., Erdweg, S. (2016). An extensible framework for variable-precision data-flow analyses in MPS. In D. Lo, S. Apel, and S. Khurshid (eds.), ASE<\/i> (pp. 870-875). ACM. Author\/Publisher URL<\/a><\/div>\n
Szab\u00f3, T., Erdweg, S., Voelter, M. (2016). IncA: a DSL for the definition of incremental program analyses. In D. Lo, S. Apel, and S. Khurshid (eds.), ASE<\/i> (pp. 320-331). ACM. Author\/Publisher URL<\/a><\/div>\n
Voelter, M., Szab\u00f3, T., Lisson, S., et al. (2016). Efficient development of consistent projectional editors using grammar cells. In T. van der Storm, E. Balland, and D. Varr\u00f3 (eds.), SLE<\/i> (pp. 28-40). ACM. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Gonzalez-Dominguez, J., Liu, Y., Tourino, J., Schmidt, B. (2016). MSAProbs-MPI: parallel multiple sequence aligner for distributed-memory systems. BIOINFORMATICS<\/i>, 32<\/i>(24), 3826-3828. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Mamoulis, N., Ge, S., Terrovitis, M. (2016). Set containment join revisited. KNOWLEDGE AND INFORMATION SYSTEMS<\/i>, 49<\/i>(1), 375-402. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Loewer, M., Aluru, S., Schmidt, B. (2016). SNVSniffer: an integrated caller for germline and somatic single-nucleotide and indel mutations. BMC SYSTEMS BIOLOGY<\/i>, 10<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gonzalez-Dominguez, J., Ramos, S., Tourino, J., Schmidt, B. (2016). Parallel Pairwise Epistasis Detection on Heterogeneous Computing Architectures. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 27<\/i>(8), 2329-2340. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Lan, H., Chan, Y., Xu, K., et al. (2016). Parallel algorithms for large-scale biological sequence alignment on Xeon-Phi based clusters. BMC BIOINFORMATICS<\/i>, 17<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Dittrich, J., Sharma, A. (2016). RUMA has it. Proceedings of the VLDB Endowment<\/i>, 9<\/i>(10), 768-779. DOI<\/a><\/div>\n
Gonzalez-Dominguez, J., Schmidt, B. (2016). ParDRe: faster parallel duplicated reads removal tool for sequencing studies. BIOINFORMATICS<\/i>, 32<\/i>(10), 1562-1564. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Mann, W., Augsten, N., Bouros, P. (2016). An Empirical Evaluation of Set Similarity Join Techniques. PROCEEDINGS OF THE VLDB ENDOWMENT<\/i>, 9<\/i>(9), 636-647. Author\/Publisher URL<\/a><\/div>\n
Tuan, T. T., Liu, Y., Schmidt, B. (2016). Bit-parallel approximate pattern matching: Kepler GPU versus Xeon Phi. PARALLEL COMPUTING<\/i>, 54<\/i>, 128-138. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Dousti, M. S., Jalili, R. (2016). An efficient statistical zero-knowledge authentication protocol for smart cards. INTERNATIONAL JOURNAL OF COMPUTER MATHEMATICS<\/i>, 93<\/i>(3), 453-481. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Jindal, A., Dittrich, J. (2016). An experimental evaluation and analysis of database cracking. VLDB JOURNAL<\/i>, 25<\/i>(1), 27-52. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Wicker, J., Lorsbach, T., G\u00fctlein, M., et al. (2016). enviPath–The environmental contaminant biotransformation pathway resource. Nucleic Acids Res.<\/i>, 44<\/i>(D1), D502-D508. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Batke, M., G\u00fctlein, M., Partosch, F., et al. (2016). Innovative strategies to develop chemical categories using a combination of structural and toxicological properties. Frontiers in pharmacology<\/i>, 7<\/i>, Art. 321. Author\/Publisher URL<\/a><\/div>\n
Bracevac, O., Erdweg, S., Salvaneschi, G., Mezini, M. (2016). CPL: A Core Language for Cloud Computing – Technical Report. CoRR<\/i>, abs\/1602.00981<\/i>.<\/div>\n
Dang, H.-V., Schmidt, B., Hildebrandt, A., et al. (2016). CUDA-enabled hierarchical ward clustering of protein structures based on the nearest neighbour chain algorithm. The International Journal of High Performance Computing Applications<\/i>, 30<\/i>, 200-211.<\/div>\n
Demetrescu, C., Erdweg, S., Hammer, M. A., Krishnamurthi, S. (2016). Programming Language Techniques for Incremental and Reactive Computing (Dagstuhl Seminar 16402). Dagstuhl Reports<\/i>, 6<\/i>, 1-12.<\/div>\n
Droby, A., Panagoulias, M., Albrecht, P., et al. (2016). A novel automated segmentation method for retinal layers in OCT images proves retinal degeneration after optic neuritis. British Journal of Ophthalmology<\/i>, 100<\/i>, 484-490.<\/div>\n
Endler, S. (2016). Modelling Speed-HR Relation using PerPot. Dagstuhl Reports<\/i>, 5<\/i>(9), Seite: 51. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (2016). IT-Grundlagen f\u00fcr Kinder \u2013 Buchstaben kodieren: Hintergrund. c\u2019t \u2013 Magazin<\/i>, 158-158.<\/div>\n
Gallenbacher, J. (2016). Multiplikation im Bin\u00e4rsystem mit Kindern ausprobieren: Hintergrund. c\u2019t \u2013 Magazin<\/i>, 158-158.<\/div>\n
Gallenbacher, J. (2016). Zahlendarstellung im Bin\u00e4rsystem einfach erkl\u00e4rt: Hintergrund. c\u2019t \u2013 Magazin<\/i>, 144-144.<\/div>\n
Gonz\u00e1lez-Dom\u00ednguez, J., Liu, Y., Schmidt, B. (2016). Parallel and scalable short-read alignment on multi-core clusters using UPC++. PLoS one<\/i>, 11<\/i>(1), e0145490. Author\/Publisher URL<\/a><\/div>\n
G\u00fctlein, M., Kramer, S. (2016). Filtered circular fingerprints improve either prediction or runtime performance while retaining interpretability. Journal of cheminformatics<\/i>, 8<\/i>, Art. 60. Author\/Publisher URL<\/a><\/div>\n
Hauenschild, R., Werner, S., Tserovski, L., et al. (2016). CoverageAnalyzer (CAn): A Tool for Inspection of Modification Signatures in RNA Sequencing Profiles. Biomolecules<\/i>, 6<\/i>, 42-42.<\/div>\n
Hundt, C., Hildebrandt, A., Schmidt, B. (2016). rapidGSEA: Speeding up gene set enrichment analysis on multi-core CPUs and CUDA-enabled GPUs. BMC bioinformatics<\/i>, 17<\/i>, 394-394.<\/div>\n
K\u00f6lling, S., Steinacker, J. M., Endler, S., et al. (2016). The longer the better : sleep\u2013wake patterns during preparation of the World Rowing Junior Championships. Chronobiology international<\/i>, 33<\/i>(1), Seiten: 73-84. Author\/Publisher URL<\/a><\/div>\n
K\u00f6lling, S., Wiewelhove, T., Raeder, C., et al. (2016). Sleep monitoring of a six-day microcycle in strength and high-intensity training. European journal of sport science<\/i>, 16<\/i>(5), Seiten: 507-515. Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Hankeln, T., Schmidt, B. (2016). Parallel and Space-Efficient Construction of Burrows-Wheeler Transform and Suffix Array for Big Genome Data. IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS<\/i>, 13<\/i>(3), 592-598. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schneider, L., St\u00f6ckel, D., Kehl, T., et al. (2016). DrugTargetInspector: An assistance tool for patient treatment stratification. International Journal of Cancer<\/i>, 138<\/i>, 1765-1776.<\/div>\n
Shao, J., Yang, Q., Dang, H.-V., et al. (2016). Scalable clustering by iterative partitioning and point attractor representation. ACM transactions on knowledge discovery from data<\/i>, 11<\/i>(1), Art. 5. Author\/Publisher URL<\/a><\/div>\n
Shao, J., Yang, Q., Liu, J., Kramer, S. (2016). Graph clustering with Density-Cut. arXiv.org.<\/i>, arXiv:1606.00950. Author\/Publisher URL<\/a><\/div>\n
Tenzer, S., Leidinger, P., Backes, C., et al. (2016). Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase. Oncotarget<\/i>, 7<\/i>, 14857-14857.<\/div>\n
Williams, J., St\u00f6nner, C., Wicker, J., et al. (2016). Cinema audiences reproducibly vary the chemical composition of air during films, by broadcasting scene specific emissions on breath. Scientific reports<\/i>, 6<\/i>, Art. 25464. Author\/Publisher URL<\/a><\/div>\n
Zheng, Z., Wei, X., Hildebrandt, A., Schmidt, B. (2016). A computational method for studying the relation between alternative splicing and DNA methylation. Nucleic acids research<\/i>, 44<\/i>, e19-e19.<\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
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Bouros, P., Mamoulis, N., Ge, S., and Terrovitis, M. (2016). Set Containment Join Revisited<\/i>. Author\/Publisher URL<\/a><\/div>\n
Bra\u010devac, O., Erdweg, S., Salvaneschi, G., and Mezini, M. (2016). CPL: A Core Language for Cloud Computing — Technical Report<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
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Andr\u00e9s L\u00f3pez, D. (2016). Kombination von Outside-In und Inside-Out Tracking zur Regelung autonomer Luftfahrzeuge<\/i> [Master\u2019s Thesis]. Hochschule RheinMain.<\/div>\n
Schuhknecht, F. M. (2016). Closing the circle of algorithmic and system-centric database optimization: a comprehensive survey on adaptive indexing, data partitioning, and the rewiring of virtual memory<\/i> [PhD Thesis]. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Burkhardt, S., Kramer, S. (2015). On the spectrum between binary relevance and classifier chains in multi-label classification. In R. L. Wainwright (ed.), Proceedings of the 30th Annual ACM Symposium on Applied Computing 2015 : Salamanca, Spain, April 13 – 17, 2015<\/i> (pp. Seiten: 885-892). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Endler, S., Hoffmann, S., Pfeiffer, M. (2015). Comparison between PerPot simulated and lactate based anaerobic threshold in handball players. In A. Radmann (ed.), 20th annual congress of the European college of sport science, 24th-27th June 2015, Malm\u00f6, Schweden : book of abstracts<\/i> (p. Seite: 239). Malm\u00f6, Schweden:European College of Sport Science.<\/div>\n
Endler, S., Secker, C., B\u00fcgner, J. (2015). What is the best fitting function? : Evaluation oflactate curves with common methods from the literature. In P. Chung (ed.), Proceedings of the 10th International Symposium on Computer Science in Sports (ISCSS)<\/i> (pp. Seiten: 185-192). Cham:Springer. Author\/Publisher URL<\/a><\/div>\n
Frank, E., Mayo, M., Kramer, S. (2015). Alternating model trees. In R. L. Wainwright (ed.), Proceedings of the 30th Annual ACM Symposium on Applied Computing 2015 : Salamanca, Spain, April 13 – 17, 2015<\/i> (pp. Seiten: 871-878). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Geilke, M., Karwath, A., Kramer, S. (2015). Modeling recurrent distributions in streams using possible worlds. In E. Gaussier (ed.), Proceedings of the 2015 IEEE International Conference on Data Science and Advanced Analytics : IEEE\/ACM DSAA\u20192015 : 19-21 Oct 2015, Paris, France<\/i> (pp. Seiten: 1-9). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Li, C., Wand, M., Wu, X., Seidel, H.-P. (2015). Approximate 3D partial symmetry detection using co-occurrence analysis. In M. Brown (ed.), 2015 International Conference on 3D Vision, 3DV 2015 : 19-22 October 2015, ENS, Lyon, France : proceedings<\/i> (pp. Seiten: 425-433). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Tyukin, A., Kramer, S., Wicker, J. (2015). Scavenger : a framework for efficient evaluation of dynamic and modular algorithms. In A. Bifet (ed.), Machine learning and knowledge discovery in databases : European conference, ECML PKDD 2015, Porto, Portugal, September 7-11, 2015; proceedings. Pt. 3<\/i> (pp. Seiten: 325-328). Cham:Springer. Author\/Publisher URL<\/a><\/div>\n
Wicker, J., Krauter, N., Derstorff, B., et al. (2015). Cinema data mining : the smell of fear. In Proceedings of the 21st ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, August 10 – 13, 2015, Sydney, Australia<\/i> (pp. Seiten: 1295-1304). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
\n
Chondrogiannis, T., Bouros, P., Gamper, J., Leser, U. (2015, November 3). Alternative routing: k-shortest paths with limited overlap. Proceedings of the 23rd SIGSPATIAL International Conference on Advances in Geographic Information Systems<\/i>. Published. SIGSPATIAL\u201915: 23rd SIGSPATIAL International Conference on Advances in Geographic Information Systems. DOI<\/a><\/div>\n
Liu, Y., Loewer, M., Aluru, S., Schmidt, B. (2015). SNVSniffer: An integrated caller for germline and somatic SNVs based on Bayesian models. 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)<\/i>, 83-90. DOI<\/a><\/div>\n
Bouros, P., Lathia, N., Renz, M., et al. (2015, September 16). LocalRec\u201915: Workshop on Location-Aware Recommendations. Proceedings of the 9th ACM Conference on Recommender Systems<\/i>. Published. RecSys \u201915: Ninth ACM Conference on Recommender Systems. DOI<\/a><\/div>\n
Schneider, D., Schomer, E., Wolpert, N. (2015). A motion planning algorithm for the invalid initial state disassembly problem. 2015 20th International Conference on Methods and Models in Automation and Robotics (MMAR)<\/i>, 35-40. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schneider, D., Schomer, E., Wolpert, N. (2015). Completely randomized RRT-connect: A case study on 3D rigid body motion planning. 2015 IEEE International Conference on Robotics and Automation (ICRA)<\/i>, 2944-2950. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Muttary, U. (2015). University Course Timetabling with Conflict Minimization and Elective Courses. 12th Workshop on Models and Algorithms for Planning and Scheduling Problems<\/i>, 224-229.<\/div>\n
Althaus, E., Beber, B., Kupilas, J., Scholl, C. (2015). Improving Interpolants for Linear Arithmetic. In B. Finkbeiner, G. Pu, and L. Zhang (eds.), ATVA<\/i> (Vols. 9364, pp. 48-63). Springer. Author\/Publisher URL<\/a><\/div>\n
Arzt, S., Nadi, S., Ali, K., et al. (2015). Towards secure integration of cryptographic software. In G. C. Murphy and G. L. S. Jr (eds.), Onward!<\/i> (pp. 1-13). ACM. Author\/Publisher URL<\/a><\/div>\n
Bahr, P., \u2026 Erdweg, S. (eds.). (2015). Proceedings of the 11th ACM SIGPLAN Workshop on Generic Programming, WGP@ICFP 2015, Vancouver, BC, Canada, August 30, 2015. WGP@ICFP<\/i>.<\/div>\n
Erdweg, S., Bracevac, O., Kuci, E., et al. (2015). A co-contextual formulation of type rules and its application to incremental type checking. In J. Aldrich and P. Eugster (eds.), OOPSLA<\/i> (pp. 880-897). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Lichter, M., Weiel, M. (2015). A sound and optimal incremental build system with dynamic dependencies. In J. Aldrich and P. Eugster (eds.), OOPSLA<\/i> (pp. 89-106). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Storm, T. van der, Dai, Y. (2015). Capture-Avoiding Program Transformations with name-fix. In U. A\u00dfmann, B. Demuth, T. Spitta, et al. (eds.), Software Engineering & Management: Vol. P-239<\/i> (pp. 93-94). GI. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (ed.). (2015). Informatik allgemeinbildend begreifen, INFOS 2015, 16. GI-Fachtagung Informatik und Schule, 20.-23. September 2015, Darmstadt, Germany<\/i>. P-249<\/i>. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J., Gose, K., Heun, D. (2015). Gestrandet auf der Schatzinsel – Sch\u00e4tze heben mit Informatik in der Grundschule. In J. Gallenbacher (ed.), Informatik allgemeinbildend begreifen, INFOS 2015, 16. GI-Fachtagung Informatik und Schule, 20.-23. September 2015, Darmstadt, Germany: Vol. P-249<\/i> (pp. 101-109). GI. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J., Heun, D., Kothe, W. (2015). Jubel, Trubel, Informatik – Ein Sch\u00fclerworkshop f\u00fcr den Klassenraum. In J. Gallenbacher (ed.), Informatik allgemeinbildend begreifen, INFOS 2015, 16. GI-Fachtagung Informatik und Schule, 20.-23. September 2015, Darmstadt, Germany: Vol. P-249<\/i> (pp. 111-118). GI. Author\/Publisher URL<\/a><\/div>\n
Grewe, S., Erdweg, S., Mezini, M. (2015). Using Vampire in Soundness Proofs of Type Systems. In L. Kov\u00e1cs, A. Voronkov (eds.), Vampire Workshop<\/i> (Vols. 38, pp. 33-51). EasyChair. Author\/Publisher URL<\/a><\/div>\n
Grewe, S., Erdweg, S., Wittmann, P., Mezini, M. (2015). Type systems for the masses: deriving soundness proofs and efficient checkers. In G. C. Murphy, G. L. S. Jr (eds.), Onward!<\/i> (pp. 137-150). ACM. Author\/Publisher URL<\/a><\/div>\n
Kuci, E., Erdweg, S., Mezini, M. (2015). Toward incremental type checking for Java. In J. Aldrich, P. Eugster (eds.), SPLASH (Companion Volume)<\/i> (pp. 46-47). ACM. Author\/Publisher URL<\/a><\/div>\n
Lan, H., Liu, W., Schmidt, B., Wang, B. (2015). Accelerating Large-Scale Biological Database Search on Xeon Phi-based Neo-Heterogeneous Architectures. PROCEEDINGS 2015 IEEE INTERNATIONAL CONFERENCE ON BIOINFORMATICS AND BIOMEDICINE<\/i>, 503-510. Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B. (2015). LightSpMV: Faster CSR-based Sparse Matrix-Vector Multiplication on CUDA-enabled GPUs. PROCEEDINGS OF THE ASAP2015 2015 IEEE 26TH INTERNATIONAL CONFERENCE ON APPLICATION-SPECIFIC SYSTEMS, ARCHITECTURES AND PROCESSORS<\/i>, 82-89. Author\/Publisher URL<\/a><\/div>\n
Qi, S., Bouros, P., Sacharidis, D., Mamoulis, N. (2015). Efficient Point-Based Trajectory Search. In C. Claramunt, M. Schneider, R. C.-W. Wong, et al. (eds.), Advances in Spatial and Temporal Databases – 14th International Symposium, SSTD 2015, Hong Kong, China, August 26-28, 2015. Proceedings<\/i> (Vols. 9239, pp. 179-196). Springer. DOI<\/a><\/div>\n
Ritschel, N., Erdweg, S. (2015). Modular capture avoidance for program transformations. In R. F. Paige, D. D. Ruscio, M. V\u00f6lter (eds.), SLE<\/i> (pp. 59-70). ACM. Author\/Publisher URL<\/a><\/div>\n
Schlarb, M., Hundt, C., Schmidt, B. (2015). SAUCE: A Web-Based Automated Assessment Tool for Teaching Parallel Programming. EURO-PAR 2015: PARALLEL PROCESSING WORKSHOPS<\/i>, 9523<\/i>, 54-65. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Shehu, A., Brunton, A., Wuhrer, S., Wand, M. (2015). Characterization of Partial Intrinsic Symmetries. COMPUTER VISION – ECCV 2014 WORKSHOPS, PT IV<\/i>, 8928<\/i>, 267-282. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Tjaden, H., Schwanecke, U., Stein, F. A., Sch\u00f6mer, E. (2015). High-Speed and Robust Monocular Tracking. In J. Braz, S. Battiato, F. H. Imai (eds.), VISAPP 2015 – Proceedings of the 10th International Conference on Computer Vision Theory and Applications, Volume 3, Berlin, Germany, 11-14 March, 2015.<\/i> (Vols. 3, pp. 462-471). SciTePress. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
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Erdweg, S., van der Storm, T., V\u00f6lter, M., et al. (2015). Evaluating and comparing language workbenches. Computer Languages, Systems &amp; Structures<\/i>, 44<\/i>, 24-47. DOI<\/a><\/div>\n
Hauenschild, R., Tserovski, L., Schmid, K., et al. (2015). The reverse transcription signature of <i>N<\/i>-1-methyladenosine in RNA-Seq is sequence dependent. NUCLEIC ACIDS RESEARCH<\/i>, 43<\/i>(20), 9950-9964. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Dousti, M. S., Jalili, R. (2015). FORSAKES: A FORWARD-SECURE AUTHENTICATED KEY EXCHANGE PROTOCOL BASED ON SYMMETRIC KEY-EVOLVING SCHEMES. ADVANCES IN MATHEMATICS OF COMMUNICATIONS<\/i>, 9<\/i>(4), 471-514. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gonzalez-Dominguez, J., Kaessens, J. C., Wienbrandt, L., Schmidt, B. (2015). Large-scale genome-wide association studies on a GPU cluster using a CUDA-accelerated PGAS programming model. INTERNATIONAL JOURNAL OF HIGH PERFORMANCE COMPUTING APPLICATIONS<\/i>, 29<\/i>(4), 506-510. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gomez-Pulido, J. A., Schmidt, B., Feng, W.- chun. (2015). Accelerating bioinformatics applications via emerging parallel computing systems [Guest editorial]. IEEE\/ACM Transactions on Computational Biology and Bioinformatics<\/i>, 12<\/i>(5), 971-972. DOI<\/a><\/div>\n
Kaessens, J. C., Wienbrandt, L., Gonzalez-Dominguez, J., et al. (2015). High-speed exhaustive 3-locus interaction epistasis analysis on FPGAs. JOURNAL OF COMPUTATIONAL SCIENCE<\/i>, 9<\/i>, 131-136. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gonzalez-Dominguez, J., Schmidt, B. (2015). GPU-accelerated exhaustive search for third-order epistatic interactions in case-control studies. JOURNAL OF COMPUTATIONAL SCIENCE<\/i>, 8<\/i>, 93-100. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Khanchandani, P., Dittrich, J. (2015). On the surprising difficulty of simple things. Proceedings of the VLDB Endowment<\/i>, 8<\/i>(9), 934-937. DOI<\/a><\/div>\n
Liu, Y., Schmidt, B. (2015). GSWABE: faster GPU-accelerated sequence alignment with optimal alignment retrieval for short DNA sequences. CONCURRENCY AND COMPUTATION-PRACTICE & EXPERIENCE<\/i>, 27<\/i>(4), 958-972. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
von Dziegielewski, A., Hemmer, M., Schomer, E. (2015). High Precision Conservative Surface Mesh Generation for Swept Volumes. IEEE Transactions on Automation Science and Engineering<\/i>, 12<\/i>, 183-191. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Brochhausen, C., Winther, H., Hundt, C., et al. (2015). A virtual microscope for academic medical education : the Pate project. Interactive journal of medical research<\/i>, 4<\/i>(2), e11. Author\/Publisher URL<\/a><\/div>\n
Dietzen, M., Kalinina, O. V., Ta\u0161kova, K., et al. (2015). Large oligomeric complex structures can be computationally assembled by efficiently combining docked interfaces. Proteins: Structure, Function, and Bioinformatics<\/i>, 83<\/i>, 1887-1899.<\/div>\n
Droby, A., Fleischer, V., Carnini, M., et al. (2015). The impact of isolated lesions on white-matter fiber tracts in multiple sclerosis patients. NeuroImage: Clinical<\/i>, 8<\/i>, 110-116.<\/div>\n
Erdweg, S., Erwig, M., Paige, R. F., Visser, E. (2015). Domain-Specific Languages (Dagstuhl Seminar 15062). Dagstuhl Reports<\/i>, 5<\/i>, 26-43.<\/div>\n
Gonzalez-Dominguez, J., Wienbrandt, L., Kaessens, J. C., et al. (2015). Parallelizing Epistasis Detection in GWAS on FPGA and GPU-Accelerated Computing Systems. IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS<\/i>, 12<\/i>(5), 982-994. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hauenschild, R., Tserovski, L., Schmid, K., et al. (2015). The reverse transcription signature of N-1-methyladenosine in RNA-Seq is sequence dependent. Nucleic Acids Research<\/i>, 43<\/i>, 9950-9964.<\/div>\n
Hildebrandt, A. K., St\u00f6ckel, D., Fischer, N. M., et al. (2015). Ballaxy: web services for structural bioinformatics. Bioinformatics<\/i>, 31<\/i>, 121-122.<\/div>\n
K\u00f6lling, S., Endler, S., Ferrauti, A., et al. (2015). Comparing subjective with objective sleep parameters via multisensory actigraphy in German physical education students. Behavioral sleep medicine<\/i>, 13<\/i>(1), Seiten: 1-17. Author\/Publisher URL<\/a><\/div>\n
Li, C., Wand, M. (2015). Approximate translational building blocks for image decomposition and synthesis. ACM transactions on graphics<\/i>, 34<\/i>(5), Art. 158. Author\/Publisher URL<\/a><\/div>\n
Li, R., Perneczky, R., Drzezga, A., Kramer, S. (2015). Efficient redundancy reduced subgroup discovery via quadratic programming. Journal of intelligent information systems<\/i>, 44<\/i>(2), Seiten: 271-288. Author\/Publisher URL<\/a><\/div>\n
Li, R., Perneczky, R., Drzezga, A., Kramer, S. (2015). Gaussian mixture models and model selection for [18F] fluorodeoxyglucose positron emission tomography classification in Alzheimer\u2019s disease. PLoS one<\/i>, 10<\/i>(4), e0122731. Author\/Publisher URL<\/a><\/div>\n
Li, R., Perneczky, R., Drzezga, A., Kramer, S. (2015). Survival analysis, the infinite Gaussian mixture model, FDG-PET and non-imaging data in the prediction of progression from mild cognitive impairment. arXiv.org<\/i>, arXiv:1512.03955. Author\/Publisher URL<\/a><\/div>\n
Storm, T. van der, Erdweg, S. (2015). Proceedings of the 3rd Workshop on Domain-Specific Language Design and Implementation (DSLDI 2015). CoRR<\/i>, abs\/1508.03536<\/i>.<\/div>\n
Thuy-Diem, N., Schmidt, B., Zheng, Z., Kwoh, C.-K. (2015). Efficient and Accurate OTU Clustering with GPU-Based Sequence Alignment and Dynamic Dendrogram Cutting. IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS<\/i>, 12<\/i>(5), 1060-1073. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Tjaden, H., Schwanecke, U., Stein, F. A., Sch\u00f6mer, E. (2015). High-speed and robust monocular tracking. VISAPP 2015 – 10th International Conference on Computer Vision Theory and Applications; VISIGRAPP, Proceedings<\/i>, 3<\/i>, 462-471. DOI<\/a><\/div>\n
Wicker, J., Lorsbach, T., G\u00fctlein, M., et al. (2015). enviPath : the environmental contaminant biotransformation pathway resource. Nucleic acids research<\/i>, 44<\/i>(Database issue), Seiten: D502-D508. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
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Storm, T. van der, and Erdweg, S. (2015). Proceedings of the 3rd Workshop on Domain-Specific Language Design and Implementation (DSLDI 2015)<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Geilke, M., Karwath, A., Kramer, S. (2014). A probabilistic condensed representation of data for stream mining. In L. Cao (ed.), 2014 International Conference on Data Science and Advanced Analytics (DSAA 2014) : Shanghai, China, 30 October – 1 November 2014<\/i> (pp. Seiten: 297-303). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Li, R., Ahmadi, Z., Kramer, S. (2014). Constrained latent dirichlet allocation for subgroup discovery with topic rules. In T. Schaub (ed.), ECAI 2014 : 21st European Conference on Artificial Intelligence, 18-22 August 2014, Prague, Czech Republic ; including Prestigious applications of intelligent systems (PAIS 2014) ; proceedings<\/i> (pp. Seiten: 519-524). Amsterdam:IOS Press. Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B. (2014). Multiple Protein Sequence Alignment with MSAProbs. In MULTIPLE SEQUENCE ALIGNMENT METHODS<\/i> (Vols. 1079, pp. 211-218). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Seeland, M., Karwath, A., Kramer, S. (2014). Structural clustering of millions of molecular graphs. In Proceedings of the 29th Annual ACM Symposium on Applied Computing 2014 : Gyeongju, Korea, March 24 – 28, 2014<\/i> (pp. Seiten: 121-128). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Seeland, M., Maunz, A., Karwath, A., Kramer, S. (2014). Extracting information from support vector machines for pattern-based classification. In Proceedings of the 29th Annual ACM Symposium on Applied Computing 2014 : Gyeongju, Korea, March 24 – 28, 2014<\/i> (pp. Seiten: 129-136). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Shao, J., Ahmadi, Z., Kramer, S. (2014). Prototype-based learning on concept-drifting data streams. In S. Macskassy (ed.), Proceedings of the 20th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, August 24 – 27, 2014, New York, NY, USA<\/i> (pp. Seiten: 412-421). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Tyukin, A., Kramer, S., Wicker, J. (2014). BMaD : a boolean matrix decomposition framework. In Machine Learning and Knowledge Discovery in Databases : European Conference, ECML PKDD 2014, Nancy, France, September 15-19, 2014. Proceedings, Part III<\/i> (pp. Seiten: 481-484). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Wu, X., Li, C., Wand, M., et al. (2014). 3D model retargeting using offset statistics. In 2014 2nd International Conference on 3D Vision (3DV 2014) : Tokyo, Japan, 8 – 11 December 2014; [proceedings]. Vol. 1<\/i> (pp. Seiten: 353-360). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
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Bouros, P., Sacharidis, D., Bikakis, N. (2014). Regionally influential users in location-aware social networks. Proceedings of the 22nd ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems<\/i>, 501-504. DOI<\/a><\/div>\n
Tran, T. T., Schindel, S., Liu, Y., Schmidt, B. (2014). Bit-Parallel Approximate Pattern Matching on the Xeon Phi Coprocessor. 2014 IEEE 26th International Symposium on Computer Architecture and High Performance Computing<\/i>, 81-88. DOI<\/a><\/div>\n
Nguyen, T.-D., Schmidt, B., Kwoh, C.-K. (2014). Fast dendrogram-based OTU clustering using sequence embedding. Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics<\/i>, 63-72. DOI<\/a><\/div>\n
Kassens, J. C., Gonzalez-Dominguez, J., Wienbrandt, L., Schmidt, B. (2014). UPC++ for bioinformatics: A case study using genome-wide association studies. 2014 IEEE International Conference on Cluster Computing (CLUSTER)<\/i>, 248-256. DOI<\/a><\/div>\n
Alvarez, V., Schuhknecht, F. M., Dittrich, J., Richter, S. (2014). Main memory adaptive indexing for multi-core systems. Proceedings of the Tenth International Workshop on Data Management on New Hardware<\/i>, 1-10. DOI<\/a><\/div>\n
Liu, Y., Schmidt, B. (2014). SWAPHI: Smith-waterman protein database search on Xeon Phi coprocessors. 2014 IEEE 25th International Conference on Application-Specific Systems, Architectures and Processors<\/i>, 184-185. DOI<\/a><\/div>\n
Althaus, E., Hildebrandt, A., Hildebrandt, A. K. (2014). A Greedy Algorithm for Hierarchical Complete Linkage Clustering. International Conference on Algorithms for Computational Biology<\/i>, 25-34.<\/div>\n
Dang, H.-V., Schmidt, B., Hildebrandt, A., Hildebrandt, A. K. (2014). Parallelized clustering of protein structures on cuda-enabled gpus. 2014 22nd Euromicro International Conference on Parallel, Distributed, and Network-Based Processing<\/i>, 1-8.<\/div>\n
Erdweg, S., Storm, T. van der, Dai, Y. (2014). Capture-Avoiding and Hygienic Program Transformations. In R. E. Jones (ed.), ECOOP<\/i> (Vols. 8586, pp. 489-514). Springer. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Vergu, V. A., Mezini, M., Visser, E. (2014). Finding bugs in program generators by dynamic analysis of syntactic language constraints. In W. Binder, E. Ernst, A. Peternier, and R. Hirschfeld (eds.), MODULARITY (Companion)<\/i> (pp. 17-20). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Vergu, V. A., Mezini, M., Visser, E. (2014). Modular specification and dynamic enforcement of syntactic language constraints when generating code. In W. Binder, E. Ernst, A. Peternier, and R. Hirschfeld (eds.), MODULARITY<\/i> (pp. 241-252). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Welc, A. (2014). DSLDI 2014: second workshop on domain specific languages design and implementation. In A. P. Black (ed.), SPLASH (Companion Volume)<\/i> (pp. 71-72). ACM. Author\/Publisher URL<\/a><\/div>\n
Gonzalez-Dominguez, J., Schmidt, B., Kaessens, J. C., Wienbrandt, L. (2014). Hybrid CPU\/GPU Acceleration of Detection of 2-SNP Epistatic Interactions in GWAS. EURO-PAR 2014 PARALLEL PROCESSING<\/i>, 8632<\/i>, 680-691. Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A., Krupp, M. (2014). Algorithms for the maximum weight connected k-induced subgraph problem. Combinatorial Optimization and Applications<\/i>, 268-268.<\/div>\n
Hundt, C., Schmidt, B., Schoemer, E. (2014). CUDA-Accelerated Alignment of Subsequences in Streamed Time Series Data. 2014 43RD INTERNATIONAL CONFERENCE ON PARALLEL PROCESSING (ICPP)<\/i>, 10-19. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hundt, C., Schmidt, B., Sch\u00f6mer, E., et al. (2014). GEM: an elastic and translation-invariant similarity measure with automatic trend adjustment. In Y. Cho, S. Y. Shin, S.-W. Kim, et al. (eds.), SAC<\/i> (pp. 105-112). ACM. Author\/Publisher URL<\/a><\/div>\n
Inostroza, P., Storm, T. van der, Erdweg, S. (2014). Tracing Program Transformations with String Origins. In D. D. Ruscio, D. Varr\u00f3 (eds.), ICMT<\/i> (Vols. 8568, pp. 154-169). Springer. Author\/Publisher URL<\/a><\/div>\n
Kaessens, J. C., Gonzalez-Dominguez, J., Wienbrandt, L., Schmidt, B. (2014). UPC plus plus for Bioinformatics: A Case Study Using Genome-Wide Association Studies. 2014 IEEE INTERNATIONAL CONFERENCE ON CLUSTER COMPUTING (CLUSTER)<\/i>, 248-256. Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B. (2014). Faster GPU-Accelerated Smith-Waterman Algorithm with Alignment Backtracking for Short DNA Sequences. PARALLEL PROCESSING AND APPLIED MATHEMATICS (PPAM 2013), PT II<\/i>, 8385<\/i>, 247-257. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Tran, T.-T., Lauenroth, F., Schmidt, B. (2014). SWAPHI-LS: Smith-Waterman Algorithm on Xeon Phi Coprocessors for Long DNA Sequences. 2014 IEEE INTERNATIONAL CONFERENCE ON CLUSTER COMPUTING (CLUSTER)<\/i>, 257-265. Author\/Publisher URL<\/a><\/div>\n
Mitra, N. J., Wand, M., Zhang, H., et al. (2014). Structure-aware shape processing. SIGGRAPH Courses<\/i>, 13:1-13:1. Author\/Publisher URL<\/a><\/div>\n
Mitschke, R., Erdweg, S., K\u00f6hler, M., et al. (2014). i3QL: language-integrated live data views. In A. P. Black, T. D. Millstein (eds.), OOPSLA<\/i> (pp. 417-432). ACM. Author\/Publisher URL<\/a><\/div>\n
Scholl, C., Pigorsch, F., Disch, S., Althaus, E. (2014). Simple interpolants for linear arithmetic. In G. P. Fettweis, W. Nebel (eds.), DATE<\/i> (pp. 1-6). European Design and Automation Association. Author\/Publisher URL<\/a><\/div>\n
Thuy-Diem, N., Schmidt, B., Kwoh, C.-K. (2014). SparseHC: a memory-efficient online hierarchical clustering algorithm. 2014 INTERNATIONAL CONFERENCE ON COMPUTATIONAL SCIENCE<\/i>, 29<\/i>, 8-19. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Weiel, M., Maier, I., Erdweg, S., et al. (2014). Towards virtual traits in Scala. In P. Haller, H. Miller (eds.), SCALA@ECOOP<\/i> (pp. 67-75). ACM. Author\/Publisher URL<\/a><\/div>\n
Wienbrandt, L., Kaessens, J. C., Gonzalez-Dominguez, J., et al. (2014). FPGA-based acceleration of detecting statistical epistasis in GWAS. 2014 INTERNATIONAL CONFERENCE ON COMPUTATIONAL SCIENCE<\/i>, 29<\/i>, 220-230. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
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Erdweg, S., Fehrenbach, S., Ostermann, K. (2014). Evolution of Software Systems with Extensible Languages and DSLs. IEEE Software<\/i>, 31<\/i>(5), 68-75. DOI<\/a><\/div>\n
Liagouris, J., Mamoulis, N., Bouros, P., Terrovitis, M. (2014). An effective encoding scheme for spatial RDF data. Proceedings of the VLDB Endowment<\/i>, 7<\/i>(12), 1271-1282. DOI<\/a><\/div>\n
Staib, F., Krupp, M., Maass, T., et al. (2014). CellMinerHCC: a microarray-based expression database for hepatocellular carcinoma cell lines. LIVER INTERNATIONAL<\/i>, 34<\/i>(4), 621-631. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hoevelmeyer, N., Woerns, M. A., Reissig, S., et al. (2014). Overexpression of Bcl-3 inhibits the development of marginal zone B cells. EUROPEAN JOURNAL OF IMMUNOLOGY<\/i>, 44<\/i>(2), 545-552. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Alvarez, V., Schuhknecht, F. M., Dittrich, J., Richter, S. (2014). Main Memory Adaptive Indexing for Multi-core Systems. CoRR<\/i>, abs\/1404.2034<\/i>. Author\/Publisher URL<\/a><\/div>\n
B\u00f6ck, M., Hinley, J., Schmitt, C., et al. (2014). Identification of ELF3 as an early transcriptional regulator of human urothelium. Developmental biology<\/i>, 386<\/i>(2), Seiten: 321-330. Author\/Publisher URL<\/a><\/div>\n
Dietzen, M., Zotenko, E., Hildebrandt, A., Lengauer, T. (2014). Correction to On the Applicability of Elastic Network Normal Modes in Small-Molecule Docking. Journal of chemical information and modeling<\/i>, 54<\/i>, 3453-3453.<\/div>\n
Erdweg, S., Storm, T. van der, Dai, Y. (2014). Capture-Avoiding and Hygienic Program Transformations (incl. Proofs). CoRR<\/i>, abs\/1404.5770<\/i>.<\/div>\n
Gallenbacher, J. (2014). Aufgaben zum \u00dcberzeugen. LOG IN<\/i>, 34<\/i>, 145-150. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
G\u00fctlein, M., Karwath, A., Kramer, S. (2014). CheS-Mapper 2.0 for visual validation of (Q)SAR models. Journal of cheminformatics<\/i>, 6<\/i>(1), Art. 41. Author\/Publisher URL<\/a><\/div>\n
Hapfelmeier, A., Pfahringer, B., Kramer, S. (2014). Pruning incremental linear model trees with approximate lookahead. IEEE transactions on knowledge and data engineering<\/i>, 26<\/i>(8), Seiten: 2072-2076. Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A. K., Dietzen, M., Lengauer, T., et al. (2014). Efficient computation of root mean square deviations under rigid transformations. Journal of computational chemistry<\/i>, 35<\/i>, 765-771.<\/div>\n
Jordan, E., Roosen-Runge, F., Leibfarth, S., et al. (2014). Competing Salt Effects on Phase Behavior of Protein Solutions: Tailoring of Protein Interaction by the Binding of Multivalent Ions and Charge Screening. The Journal of Physical Chemistry B<\/i>, 118<\/i>, 11365-11374.<\/div>\n
Liu, Y., Popp, B., Schmidt, B. (2014). CUSHAW3 : sensitive and accurate base-space and color-space short-read alignment with hybrid seeding. PLoS one<\/i>, 9<\/i>(1), e86869. Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B. (2014). CUSHAW2-GPU: Empowering Faster Gapped Short-Read Alignment Using GPU Computing. IEEE DESIGN & TEST<\/i>, 31<\/i>(1), 31-39. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B. (2014). SWAPHI: Smith-Waterman Protein Database Search on Xeon Phi Coprocessors. PROCEEDINGS OF THE 2014 IEEE 25TH INTERNATIONAL CONFERENCE ON APPLICATION-SPECIFIC SYSTEMS, ARCHITECTURES AND PROCESSORS (ASAP 2014)<\/i>, 184-185. Author\/Publisher URL<\/a><\/div>\n
Ripp, F., Krombholz, C. F., Liu, Y., et al. (2014). All-Food-Seq (AFS) : a quantifiable screen for species in biological samples by deep DNA sequencing. BMC genomics<\/i>, 15<\/i>, Art. 639. Author\/Publisher URL<\/a><\/div>\n
Schmidt, J., Kramer, S. (2014). Online induction of probabilistic real-time automata. Journal of computer science and technology<\/i>, 29<\/i>(3), Seiten: 345-360. Author\/Publisher URL<\/a><\/div>\n
Seifert, T., Lund, A., Kneissl, B., et al. (2014). SKINK: a web server for string kernel based kink prediction in \u03b1-helices. Bioinformatics<\/i>, 30<\/i>, 1769-1770.<\/div>\n
Wirawan, A., Harris, R. S., Liu, Y., et al. (2014). HECTOR : a parallel multistage homopolymer spectrum based error corrector for 454 sequencing data. BMC bioinformatics<\/i>, 15<\/i>, Art. 131. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
\n\n\t\n\t
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Erdweg, S., Storm, T. van der, and Dai, Y. (2014). Capture-Avoiding and Hygienic Program Transformations (incl. Proofs)<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
\n\n\t\n\t
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Erbes, R., Mantel, A., Sch\u00f6mer, E., and Wolpert, N. (2013). Parallel Collision Queries on the GPU<\/i> (pp. 84-95). DOI<\/a><\/div>\n
Geilke, M., Frank, E., Karwath, A., and Kramer, S. (2013). Online estimation of discrete densities. In IEEE 13th International Conference on Data Mining (ICDM), 2013 : 7 – 10 Dec. 2013, Dallas, Texas<\/i> (pp. Seiten: 191-200). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Hapfelmeier, A., Schmidt, J., and Kramer, S. (2013). Incremental linear model trees on massive datasets : keep it simple, keep it fast. In Proceedings of the 28th Annual ACM Symposium on Applied Computing<\/i> (pp. Seiten: 129-135). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Hoffmann, S., Endler, S., Sterzing, B., and Pfeiffer, M. (2013). Der Vergleich der anaeroben Schwelle anhand des sportinformatischen Modells PerPot mit der klassischen Laktatleistungsdiagnostik. In F. Mess (ed.), Sportwissenschaft grenzenlos?! : 25.-27. September 2013 ; abstracts<\/i> (p. Seite: 86). Hamburg:Feldhaus Ed. Czwalina. Author\/Publisher URL<\/a><\/div>\n
Seeland, M., Kramer, S., and Pfahringer, B. (2013). Model selection based product kernel learning for regression on graphs. In Proceedings of the 28th Annual ACM Symposium on Applied Computing<\/i> (pp. Seiten: 136-143). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
\n
Sacharidis, D., Bouros, P. (2013, November 5). Routing directions: keeping it fast and simple. Proceedings of the 21st ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems<\/i>. Published. SIGSPATIAL\u201913: 21st SIGSPATIAL International Conference on Advances in Geographic Information Systems. DOI<\/a><\/div>\n
Aly, M., Charfi, A., Erdweg, S., Mezini, M. (2013). XPoints: Extension Interfaces for Multilayered Applications. 2013 17th IEEE International Enterprise Distributed Object Computing Conference<\/i>, 237-246. DOI<\/a><\/div>\n
Haghighat, A. T., Kargar, M. A., Dousti, M. S., Jalili, R. (2013). Notice of Removal: Minimal assumptions to achieve privacy in e-voting protocols. 2013 10th International ISC Conference on Information Security and Cryptology (ISCISC)<\/i>, 1-5. DOI<\/a><\/div>\n
Haghighat, A. T., Dousti, M. S., Jalili, R. (2013). Notice of Removal: An efficient and provably-secure coercion-resistant e-voting protocol. 2013 Eleventh Annual Conference on Privacy, Security and Trust<\/i>, 161-168. DOI<\/a><\/div>\n
Erdweg, S., Rieger, F. (2013). A framework for extensible languages. In J. J\u00e4rvi and C. K\u00e4stner (eds.), GPCE<\/i> (pp. 3-12). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Storm, T. van der, V\u00f6lter, M., et al. (2013). The State of the Art in Language Workbenches – Conclusions from the Language Workbench Challenge. In M. Erwig, R. F. Paige, and E. V. Wyk (eds.), SLE<\/i> (Vols. 8225, pp. 197-217). Springer. Author\/Publisher URL<\/a><\/div>\n
Fehrenbach, S., Erdweg, S., Ostermann, K. (2013). Software Evolution to Domain-Specific Languages. In M. Erwig, R. F. Paige, and E. V. Wyk (eds.), SLE<\/i> (Vols. 8225, pp. 96-116). Springer. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J., Heun, D. (2013). Ein moderner Ansatz f\u00fcr Anchored Instruction im Informatikunterricht. In N. Breier, P. Stechert, and T. Wilke (eds.), Informatik erweitert Horizonte, INFOS 2013, 15. GI-Fachtagung Informatik und Schule, 26.-28. September 2013, Kiel, Germany: Vol. P-219<\/i> (pp. 87-96). GI. Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A. K., Althaus, E., Lenhof, H.-P., et al. (2013). Efficient Interpretation of Tandem Mass Tags in Top-Down Proteomics. German Conference on Bioinformatics 2013<\/i>, 34<\/i>, 56-67.<\/div>\n
Jindal, A., Schuhknecht, F. M., Dittrich, J., et al. (2013). How Achaeans Would Construct Columns in Troy. Sixth Biennial Conference on Innovative Data Systems Research, CIDR 2013, Asilomar, CA, USA, January 6-9, 2013, Online Proceedings<\/i>. Author\/Publisher URL<\/a><\/div>\n
Lorenzen, F., Erdweg, S. (2013). Modular and automated type-soundness verification for language extensions. In G. Morrisett and T. Uustalu (eds.), ICFP<\/i> (pp. 331-342). ACM. Author\/Publisher URL<\/a><\/div>\n
Martin, M., Mezini, M., Erdweg, S. (2013). Template constructors for reusable object initialization. In J. J\u00e4rvi and C. K\u00e4stner (eds.), GPCE<\/i> (pp. 43-52). ACM. Author\/Publisher URL<\/a><\/div>\n
Mitra, N. J., Ovsjanikov, M., Pauly, M., et al. (2013). Symmetry in Shapes – Theory and Practice. In D. Gutierrez and K. Myszkowski (eds.), Eurographics (Tutorials)<\/i>. Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Mitra, N. J., Wand, M., Zhang, H. R., et al. (2013). Structure-aware shape processing. In Y. Yu (ed.), SIGGRAPH ASIA Courses<\/i> (pp. 1:1-1:1). ACM. Author\/Publisher URL<\/a><\/div>\n
Mitra, N. J., Wand, M., Zhang, H., et al. (2013). Structure-Aware Shape Processing. In M. Sbert and L. Szirmay-Kalos (eds.), Eurographics (State of the Art Reports)<\/i> (pp. 175-197). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Nickels, S., St\u00f6ckel, D., Mueller, S. C., et al. (2013). PresentaBALL\u2014A powerful package for presentations and lessons in structural biology. Biological Data Visualization (BioVis), 2013 IEEE Symposium on<\/i>, 33-40.<\/div>\n
Qi, S., Bouros, P., Mamoulis, N. (2013). Efficient Top-k Spatial Distance Joins. In M. A. Nascimento, T. K. Sellis, R. Cheng, et al. (eds.), Advances in Spatial and Temporal Databases – 13th International Symposium, SSTD 2013, Munich, Germany, August 21-23, 2013. Proceedings<\/i> (Vols. 8098, pp. 1-18). Springer. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Dang, H.-V., Schmidt, B. (2013). CUDA-enabled Sparse Matrix-Vector Multiplication on GPUs using atomic operations. PARALLEL COMPUTING<\/i>, 39<\/i>(11), 737-750. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schuhknecht, F. M., Jindal, A., Dittrich, J. (2013). The uncracked pieces in database cracking. Proceedings of the VLDB Endowment<\/i>, 7<\/i>(2), 97-108. DOI<\/a><\/div>\n
Chen, Y., Schmidt, B., Maskell, D. L. (2013). Reconfigurable Accelerator for the Word-Matching Stage of BLASTN. IEEE TRANSACTIONS ON VERY LARGE SCALE INTEGRATION (VLSI) SYSTEMS<\/i>, 21<\/i>(4), 659-669. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Chen, Y., Schmidt, B., Maskell, D. L. (2013). A hybrid short read mapping accelerator. BMC BIOINFORMATICS<\/i>, 14<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schroeder, J., Schmidt, B. (2013). Musket: a multistage <i>k-<\/i>mer spectrum-based error corrector for Illumina sequence data. BIOINFORMATICS<\/i>, 29<\/i>(3), 308-315. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schr\u00f6der, J., Schmidt, B. (2013). Musket: a multistage k-mer spectrum-based error corrector for Illumina sequence data. [Print-Electronic]. Bioinformatics (Oxford, England)<\/i>, 29<\/i>(3), 308-315. DOI<\/a><\/div>\n
Althaus, E., Kupilas, J., Naujoks, R. (2013). On the low-dimensional Steiner minimum tree problem in Hamming metric. Theoretical computer science<\/i>, 505<\/i>, Seiten: 2-10. Author\/Publisher URL<\/a><\/div>\n
Cabezas-Wallscheid, N., Eichwald, V., de Graaf, J., et al. (2013). Instruction of haematopoietic lineage choices, evolution of transcriptional landscapes and cancer stem cell hierarchies derived from an AML1-ETO mouse model. EMBO molecular medicine<\/i>, 5<\/i>, 1804-1820.<\/div>\n
Dehof, A. K., Loew, S., Lenhof, H.-P., Hildebrandt, A. (2013). NightShift: NMR shift inference by general hybrid model training-a framework for NMR chemical shift prediction. BMC bioinformatics<\/i>, 14<\/i>, 98-98.<\/div>\n
Girschick, T., Almeida, P. R., Kramer, S., Stalring, J. (2013). Similarity boosted quantitative structure-activity relationship : a systematic study of enhancing structural descriptors by molecular similarity. Journal of chemical information and modeling<\/i>, 53<\/i>(5), Seiten: 1017-1025. Author\/Publisher URL<\/a><\/div>\n
Girschick, T., Puchbauer, L., Kramer, S. (2013). Improving structural similarity based virtual screening using background knowledge. Journal of cheminformatics<\/i>, 5<\/i>, Art. 50. Author\/Publisher URL<\/a><\/div>\n
Girschick, T., R\u00fcckert, U., Kramer, S. (2013). Adapted transfer of distance measures for quantitative structure-activity relationships and data-driven selection of source datasets. The computer journal<\/i>, 56<\/i>(3), Seiten: 274-288. Author\/Publisher URL<\/a><\/div>\n
G\u00fctlein, M., Helma, C., Karwath, A., Kramer, S. (2013). A large-scale empirical evaluation of cross-validation and external test set validation in (Q)SAR. Molecular informatics<\/i>, 32<\/i>(5-6), Seiten: 516-528. Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Wirawan, A., Schmidt, B. (2013). CUDASW++ 3.0 : accelerating Smith-Waterman protein database search by coupling CPU and GPU SIMD instructions. BMC bioinformatics<\/i>, 14<\/i>, Art. 117. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Aribowo, H., Hoang-Vu, D. (2013). Iterative sparse matrix-vector multiplication for accelerating the block Wiedemann algorithm over GF(2) on multi-graphics processing unit systems. CONCURRENCY AND COMPUTATION-PRACTICE & EXPERIENCE<\/i>, 25<\/i>(4), 586-603. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schmidt, J., Ghorbani, A., Hapfelmeier, A., Kramer, S. (2013). Learning probabilistic real-time automata from multi-attribute event logs. Intelligent data analysis<\/i>, 17<\/i>(1), Seiten: 93-123. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
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Sacharidis, D., and Bouros, P. (2013). Routing Directions: Keeping it Fast and Simple<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
\n\n\t\n\t
\n
Andr\u00e9s L\u00f3pez, D. (2013). Integration des Internets der Dinge in Unternehmensnetzwerke<\/i> [Undergraduate Dissertation]. Duale Hochschule Baden-W\u00fcrttemberg Mannheim.<\/div>\n
Endler, S. (2013). Anpassung des Metamodells PerPot an den ausdauerorientierten Laufsport zur Trainings- und Wettkampfoptimierung<\/i> [PhD Thesis]. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Duchrow, T., Schr\u00f6er, M., Griesbach, B., et al. (2012). Towards electric mobility data mining. In 2012 IEEE International Electric Vehicle Conference (IEVC 2012) : Greenville, South Carolina, USA, 4 – 8 March 2012<\/i> (pp. Seiten: 268-273). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Endler, S., Perl, J. (2012). Optimizing practice and competition in marathon running by means of the meta-model PerPot. In Y. Jiang (ed.), Proceedings of 2012 pre-Olympic congress on sports science and computer science in sport : Liverpool, United Kingdom, July 24-25, 2012<\/i> (pp. Seiten: 127-131). Edgbaston:World Academic Union.<\/div>\n
Li, R., Kramer, S. (2012). Efficient redundancy reduced subgroup discovery via quadratic programming. In J.-G. Ganascia (ed.), Discovery science : 15th international conference, DS 2012, Lyon, France, October 29-31, 2012<\/i> (pp. Seiten: 125-138). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n
Perl, J., Memmert, D., Baca, A., et al. (2012). Sensors, monitoring and model-based data analysis in sports, exercise and rehabilitation. In D. T. H. Lai (ed.), Healthcare sensor networks : challenges toward practical implementation<\/i> (pp. Seiten: 375-405). Boca Raton, Fla:CRC, Taylor & Francis.<\/div>\n
Schmidt, J., Ansorge, S., Kramer, S. (2012). Scalable induction of probabilistic real-time automata using maximum frequent pattern based clustering. In 12th SIAM International Conference on Data Mining 2012 : Anaheim, California, USA, 26 – 28 April 2012<\/i> (pp. Seiten: 272-283). Philadelphia, PA:Society for Industrial and Applied Mathematics. Author\/Publisher URL<\/a><\/div>\n
Schmidt, J., Kramer, S. (2012). Online induction of probabilistic real time automata. In M. J. Zaki (ed.), IEEE 12th International Conference on Data Mining (ICDM), 2012 : 10 – 13 Dec. 2012, Brussels, Belgium<\/i> (pp. Seiten: 625-634). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Seeland, M., Buchwald, F., Kramer, S., Pfahringer, B. (2012). Maximum common subgraph based locally weighted regression. In The 27th annual ACM Symposium on Applied Computing : Riva del Garda, Trento, Italy, March 26 – 30, 2012<\/i> (pp. Seiten: 165-172). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Seeland, M., Karwath, A., Kramer, S. (2012). A structural cluster kernel for learning on graphs. In Proceedings of the 18th ACM SIGKDD international conference on knowledge discovery and data mining (KDD-2012), August 12 – 16, 2012, Beijing, China<\/i> (pp. Seiten: 516-524). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Wicker, J., Pfahringer, B., Kramer, S. (2012). Multi-label classification using Boolean matrix decomposition. In The 27th annual ACM Symposium on Applied Computing : Riva del Garda, Trento, Italy, March 26 – 30, 2012<\/i> (pp. Seiten: 179-186). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Books<\/h3>\n\t
\n\n\t\n\t
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Tampier, M., Endler, S., Baca, A., and Perl, J. (2012). Entwicklung eines intelligenten Echtzeit Feedback Systems<\/i> (pp. Seiten: 64-67). Konstanz:Bibliothek der Universit\u00e4t Konstanz. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
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Althaus, E., Hoffmann, S., Kupilas, J., Thaden, E. (2012). A Column Generation Approach to Scheduling of Real-Time Networks – Best Paper Award of International Conference on Computer Science and Applications 2012<\/i> (S. I. Ao, C. Douglas, W. S. Grundfest, and J. Burgstone, eds.; pp. 224-229). Newswood Limited.<\/div>\n
Chen, Y., Schmidt, B., Maksell, D. L. (2012). An FPGA aligner for short read mapping. 22nd International Conference on Field Programmable Logic and Applications (FPL)<\/i>, 511-514. DOI<\/a><\/div>\n
Ihrke, I., Reshetouski, I., Manakov, A., et al. (2012). A kaleidoscopic approach to surround geometry and reflectance acquisition. 2012 IEEE Computer Society Conference on Computer Vision and Pattern Recognition Workshops<\/i>, 29-36. DOI<\/a><\/div>\n
Liu, Y., Schmidt, B. (2012). Evaluation of GPU-based Seed Generation for Computational Genomics Using Burrows-Wheeler Transform. 2012 IEEE 26th International Parallel and Distributed Processing Symposium Workshops &amp; PhD Forum<\/i>, 684-690. DOI<\/a><\/div>\n
von Dziegielewski, A., Hemmer, M., Sch\u00f6mer, E. (2012). High quality conservative surface mesh generation for swept volumes. 2012 IEEE International Conference on Robotics and Automation<\/i>, 764-769. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Chen, Y., Schmidt, B., Maskell, D. L. (2012). Accelerating short read mapping on an FPGA (abstract only). Proceedings of the ACM\/SIGDA international symposium on Field Programmable Gate Arrays<\/i>, 265-265. DOI<\/a><\/div>\n
Benz, F., Hildebrandt, A., Hack, S. (2012). A dynamic program analysis to find floating-point accuracy problems. ACM SIGPLAN Notices<\/i>, 47<\/i>, 453-462.<\/div>\n
Chang, W., Li, H., Mitra, N. J., et al. (2012). Dynamic Geometry Processing. In R. Pajarola and M. Spagnuolo (eds.), Eurographics (Tutorials)<\/i>. Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Dang, H.-V., Schmidt, B. (2012). The Sliced COO Format for Sparse Matrix-Vector Multiplication on CUDA-enabled GPUs. Procedia Computer Science<\/i>, 9<\/i>, 57-66. DOI<\/a><\/div>\n
Droby, A., Fleischer, V., Zimmermann, H., et al. (2012). Impact of infratentorial lesions on affected fibers in multiple sclerosis. MULTIPLE SCLEROSIS JOURNAL<\/i>, 18<\/i>, 517-517.<\/div>\n
Erdweg, S., Giarrusso, P. G., Rendel, T. (2012). Language composition untangled. In A. Sloane and S. Andova (eds.), LDTA<\/i> (pp. 7-7). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Rendel, T., K\u00e4stner, C., Ostermann, K. (2012). Layout-Sensitive Generalized Parsing. In K. Czarnecki and G. Hedin (eds.), SLE<\/i> (Vols. 7745, pp. 244-263). Springer. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Rieger, F., Rendel, T., Ostermann, K. (2012). Layout-sensitive language extensibility with SugarHaskell. In J. Voigtl\u00e4nder (ed.), Haskell<\/i> (pp. 149-160). ACM. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (2012). Abenteuer informatik: hands-on exhibits for learning about computational thinking. In M. Knobelsdorf and R. Romeike (eds.), Workshop in Primary and Secondary Computing Education, WIPSCE \u201912, Hamburg, Germany, November 8-9, 2012<\/i> (pp. 149-150). ACM. DOI<\/a><\/div>\n
K\u00e4stner, C., Ostermann, K., Erdweg, S. (2012). A variability-aware module system. In G. T. Leavens and M. B. Dwyer (eds.), OOPSLA<\/i> (pp. 773-792). ACM. Author\/Publisher URL<\/a><\/div>\n
K\u00e4stner, C., Rhein, A. von, Erdweg, S., et al. (2012). Toward variability-aware testing. In I. Schaefer and T. Th\u00fcm (eds.), FOSD<\/i> (pp. 1-8). ACM. Author\/Publisher URL<\/a><\/div>\n
Mitra, N. J., Pauly, M., Wand, M., Ceylan, D. (2012). Symmetry in 3D Geometry: Extraction and Applications. In M.-P. Cani and F. Ganovelli (eds.), Eurographics (State of the Art Reports)<\/i> (pp. 29-51). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Nickels, S., Sminia, H., Mueller, S. C., et al. (2012). ProteinScanAR-An augmented reality web application for high school education in biomolecular life sciences. 2012 16th International Conference on Information Visualisation<\/i>, 578-583.<\/div>\n
Schmidt, B., Maskell, D. (2012). Fourth Workshop on using Emerging Parallel Architectures. Procedia Computer Science<\/i>, 9<\/i>, 1867-1869. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Bouros, P., Ge, S., Mamoulis, N. (2012). Spatio-textual similarity joins. Proceedings of the VLDB Endowment<\/i>, 6<\/i>(1), 1-12. DOI<\/a><\/div>\n
Liu, Y., Schmidt, B. (2012). Long read alignment based on maximal exact match seeds. BIOINFORMATICS<\/i>, 28<\/i>(18), I318-I324. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gross, D., Heil, U., Schulze, R., et al. (2012). Auto calibration of a cone-beam-CT. Medical Physics<\/i>, 39<\/i>, 5959-5970. DOI<\/a><\/div>\n
Schlitt, S., Gorelik, T. E., Stewart, A. A., et al. (2012). Application of clustering techniques to electron-diffraction data: determination of unit-cell parameters. Acta Crystallographica Section A Foundations of Crystallography<\/i>, 68<\/i>, 536-546. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B., Maskell, D. L. (2012). CUSHAW: a CUDA compatible short read aligner to large genomes based on the Burrows-Wheeler transform. BIOINFORMATICS<\/i>, 28<\/i>(14), 1830-1837. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Dumitriu, D. (2012). Certifying feasibility and objective value of linear programs. Operations Research Letters<\/i>, 40<\/i>(4), 292-297. DOI<\/a><\/div>\n
Bouros, P., Sacharidis, D., Dalamagas, T., et al. (2012). Evaluating Path Queries over Frequently Updated Route Collections. IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING<\/i>, 24<\/i>(7), 1276-1290. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Benz, F., Hildebrandt, A., Hack, S. (2012). A Dynamic Program Analysis to find Floating-Point Accuracy Problems. ACM SIGPLAN NOTICES<\/i>, 47<\/i>(6), 453-462. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Limbach, S., Sch\u00f6mer, E., Wernli, H. (2012). Detection, tracking and event localization of jet stream features in 4-D atmospheric data. Geoscientific Model Development<\/i>, 5<\/i>, 457-470. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
B\u00f6ck, M., Ogishima, S., Tanaka, H., et al. (2012). Hub-centered gene network reconstruction using automatic relevance determination. PLoS one<\/i>, 7<\/i>(5), e35077. Author\/Publisher URL<\/a><\/div>\n
Dietzen, M., Zotenko, E., Hildebrandt, A., Lengauer, T. (2012). On the Applicability of Elastic Network Normal Modes in Small-Molecule Docking. Journal of chemical information and modeling<\/i>, 52<\/i>, 844-856.<\/div>\n
Ganzert, S., Kramer, S., Guttmann, J. (2012). Predicting the lung compliance of mechanically ventilated patients via statistical modeling. Physiological measurement<\/i>, 33<\/i>(3), Seiten: 345-359. Author\/Publisher URL<\/a><\/div>\n
G\u00fctlein, M., Karwath, A., Kramer, S. (2012). CheS-Mapper : Chemical Space Mapping and visualization in 3D. Journal of cheminformatics<\/i>, 4<\/i>, Art. 7. Author\/Publisher URL<\/a><\/div>\n
Krupp, M., Itzel, T., Maass, T., et al. (2012). CellLineNavigator: a workbench for cancer cell line analysis. Nucleic acids research<\/i>, 41<\/i>, D942-D948.<\/div>\n
Perl, J., Endler, S. (2012). PerPot individual anaerobe threshold marathon scheduling. International journal of computer science in sport<\/i>, 11<\/i>(2), Seiten: 52-60.<\/div>\n
Slawski, M., Hussong, R., Tholey, A., et al. (2012). Isotope pattern deconvolution for peptide mass spectrometry by non-negative least squares\/least absolute deviation template matching. BMC bioinformatics<\/i>, 13<\/i>, 291-291.<\/div>\n
Zheng, Z., Kramer, S., Schmidt, B. (2012). DySC : software for greedy clustering of 16S rRNA reads. Bioinformatics<\/i>, 28<\/i>(16), Seiten: 2182-2183. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Varr\u00e9, J.-S., Schmidt, B., Janot, S., Giraud, M. (2011). Manycore High-Performance Computing in Bioinformatics. In Science, Engineering, and Biology Informatics<\/i> (pp. 179-207). WORLD SCIENTIFIC. DOI<\/a><\/div>\n
Alphonse, E., Girschick, T., Buchwald, F., Kramer, S. (2011). A numerical refinement operator based on multi-instance learning. In P. Frasconi (ed.), Inductive Logic Programming : 20th International Conference, ILP 2010, Florence, Italy, June 27-30, 2010<\/i> (pp. Seiten: 14-21). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n
Endler, S., Perl, J. (2011). Leistungsoptimierung beim Marathon mit sportinformatischen Modellen. In D. Link (ed.), Sportinformatik trifft Sporttechnologie : 8. Symposium der dvs-Sektion Sportinformatik in Kooperation mit der Deutschen Interdisziplin\u00e4ren Vereinigung f\u00fcr Sporttechnologie vom 15. – 17. September 2010 in Darmstadt<\/i> (pp. Seiten: 221-225). Hamburg:Feldhaus, Ed. Czwalina.<\/div>\n
Endler, S., Pietzonka, M., Pfeiffer, M., et al. (2011). Ein Methodenvergleich zwischen laktatbasierten und informatischem Schwellenkonzepten. In K. Hottenrott (ed.), Kreativit\u00e4t – Innovation – Leistung : Wissenschaft bewegt SPORT bewegt Wissenschaft : 21.-23. September 2011 ; abstracts<\/i> (p. Seite: 127). Hamburg:Feldhaus Ed. Czwalina.<\/div>\n
Grunz, A., Endler, S., Memmert, D., Perl, J. (2011). Netz-gest\u00fctzte Konstellations-Analyse im Fu\u00dfball. In D. Link (ed.), Sportinformatik trifft Sporttechnologie : 8. Symposium der dvs-Sektion Sportinformatik in Kooperation mit der Deutschen Interdisziplin\u00e4ren Vereinigung f\u00fcr Sporttechnologie vom 15. – 17. September 2010 in Darmstadt<\/i> (pp. Seiten: 111-115). Hamburg:Feldhaus, Ed. Czwalina.<\/div>\n
Kramer, S., Schmidt, J., Br\u00e4ndle, E. M. (2011). Clustering with attribute-level constraints. In D. Cook (ed.), 11th IEEE International Conference on Data Mining : Vancouver, Canada, 11-14 December 2011<\/i> (pp. Seiten: 1206-1211). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
Li, R., Hapfelmeier, A., Schmidt, J., et al. (2011). A case study of stacked multi-view learning in dementia research. In M. Peleg (ed.), Artificial intelligence in medicine : 13th Conference on Artificial Intelligence in Medicine, AIME 2011, Bled, Slovenia, July 2-6, 2011<\/i> (pp. Seiten: 60-69). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n
Ligowski, \u0141ukasz, Rudnicki, W. R., Liu, Y., Schmidt, B. (2011). Accurate Scanning of Sequence Databases with the Smith-Waterman Algorithm. In GPU Computing Gems Emerald Edition<\/i> (pp. 155-171). Elsevier. DOI<\/a><\/div>\n
Schmidt, J., Kramer, S. (2011). The augmented itemset tree : a data structure for online maximum frequent pattern mining. In T. Elomaa (ed.), Discovery science : 14th international conference, DS 2011, Espoo, Finland, October 5-7, 2011<\/i> (pp. Seiten: 277-291). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n
Seeland, M., Berger, S. A., Stamatakis, A., Kramer, S. (2011). Parallel structural graph clustering. In Machine learning and knowledge discovery in databases : European conference, ECML PKDD 2011, Athens, Greece, September 5-9, 2011 ; proceedings, Part III<\/i> (pp. Seiten: 256-272). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Books<\/h3>\n\t
\n\n\t\n\t
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Schmidt, B. (2011). Bioinformatics High Performance Parallel Computer Architectures<\/i>. CRC Press.<\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
\n\n\t\n\t
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Liu, W., Schmidt, B., Liu, Y., et al. (2011). Mapping of BLASTP Algorithm onto GPU Clusters. 2011 IEEE 17th International Conference on Parallel and Distributed Systems<\/i>, 236-243. DOI<\/a><\/div>\n
Heil, U., Gross, D., Schulze, R., et al. (2011). Metal artifact reduction in x-ray computed tomography: Inpainting versus missing value. 2011 IEEE Nuclear Science Symposium Conference Record<\/i>, 2675-2677. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Thum, T., Kastner, C., Erdweg, S., Siegmund, N. (2011). Abstract Features in Feature Modeling. 2011 15th International Software Product Line Conference<\/i>, 191-200. DOI<\/a><\/div>\n
Lasowski, R., Tevs, A., Wand, M., Seidel, H.-P. (2011). Wavelet belief propagation for large scale inference problems. CVPR 2011<\/i>, 1921-1928. DOI<\/a><\/div>\n
Liu, Y., Schmidt, B., Maskell, D. L. (2011). An Ultrafast Scalable Many-Core Motif Discovery Algorithm for Multiple GPUs. 2011 IEEE International Symposium on Parallel and Distributed Processing Workshops and Phd Forum<\/i>, 428-434. DOI<\/a><\/div>\n
Terrovitis, M., Bouros, P., Vassiliadis, P., et al. (2011). Efficient answering of set containment queries for skewed item distributions. Proceedings of the 14th International Conference on Extending Database Technology<\/i>, 225-236. DOI<\/a><\/div>\n
Althaus, E., Altmeyer, S., Naujoks, R. (2011). Precise and efficient parametric path analysis. In J. Vitek and B. D. Sutter (eds.), LCTES<\/i> (pp. 141-150). ACM. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Altmeyer, S., Naujoks, R. (2011). Symbolic Worst Case Execution Times. In A. Cerone and P. Pihlajasaari (eds.), ICTAC<\/i> (Vols. 6916, pp. 25-44). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Becker, B., Dumitriu, D., Kupferschmid, S. (2011). Integration of an LP Solver into Interval Constraint Propagation. In W. Wang, X. Zhu, and D.-Z. Du (eds.), COCOA<\/i> (Vols. 6831, pp. 343-356). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Kupilas, J., Naujoks, R. (2011). On the Low-Dimensional Steiner Minimum Tree Problem in Hamming Metric. In M. Ogihara and J. Tarui (eds.), TAMC<\/i> (Vols. 6648, pp. 308-319). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Naujoks, R., Thaden, E. (2011). A Column Generation Approach to Scheduling of Periodic Tasks. In P. M. Pardalos and S. Rebennack (eds.), SEA<\/i> (Vols. 6630, pp. 340-351). Springer. Author\/Publisher URL<\/a><\/div>\n
Aluru, S., Bandyopadhyay, S., \u00c7ataly\u00fcrek, \u00dcmit V., \u2026 Schmidt, B. (eds.). (2011). Contemporary Computing – 4th International Conference, IC3 2011, Noida, India, August 8-10, 2011. Proceedings. IC3<\/i>, 168<\/i>.<\/div>\n
Bardhan, J. P., Hildebrandt, A. (2011). A fast solver for nonlocal electrostatic theory in biomolecular science and engineering. Proceedings of the 48th Design Automation Conference<\/i>, 801-805.<\/div>\n
Bouros, P., Sacharidis, D., Dalamagas, T., Sellis, T. K. (2011). Dynamic Pickup and Delivery with Transfers. In D. Pfoser, Y. Tao, K. Mouratidis, et al. (eds.), Advances in Spatial and Temporal Databases – 12th International Symposium, SSTD 2011, Minneapolis, MN, USA, August 24-26, 2011, Proceedings<\/i> (Vols. 6849, pp. 112-129). Springer. DOI<\/a><\/div>\n
Chang, W., Li, H., Mitra, N. J., et al. (2011). Computing Correspondences in Geometric Data Sets. In R. Martin, J. C. Torres (eds.), Eurographics (Tutorials)<\/i>. Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Dehof, A. (2011). Predicting Protein NMR Chemical Shifts in the Presence of Ligands and Ions using Force Field-based Features. German Conference on Bioinformatics (GCB 2011)<\/i>.<\/div>\n
Erdweg, S., Kats, L. C. L., Rendel, T., et al. (2011). Growing a language environment with editor libraries. In E. Denney, U. P. Schultz (eds.), GPCE<\/i> (pp. 167-176). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Kats, L. C. L., Rendel, T., et al. (2011). Library-based model-driven software development with SugarJ. In C. V. Lopes, K. Fisher (eds.), OOPSLA Companion<\/i> (pp. 17-18). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Kats, L. C. L., Rendel, T., et al. (2011). SugarJ: library-based language extensibility. In C. V. Lopes, K. Fisher (eds.), OOPSLA Companion<\/i> (pp. 187-188). ACM. Author\/Publisher URL<\/a><\/div>\n
Erdweg, S., Rendel, T., K\u00e4stner, C., Ostermann, K. (2011). SugarJ: library-based syntactic language extensibility. In C. V. Lopes, K. Fisher (eds.), OOPSLA<\/i> (pp. 391-406). ACM. Author\/Publisher URL<\/a><\/div>\n
Kerber, J., Wand, M., Kr\u00fcger, J. H., Seidel, H.-P. (2011). Partial Symmetry Detection in Volume Data. In P. Eisert, J. Hornegger, K. Polthier (eds.), VMV<\/i> (pp. 41-48). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
K\u00e4stner, C., Giarrusso, P. G., Rendel, T., et al. (2011). Variability-aware parsing in the presence of lexical macros and conditional compilation. In C. V. Lopes, K. Fisher (eds.), OOPSLA<\/i> (pp. 805-824). ACM. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Maskell, D. (2011). Third Workshop on using Emerging Parallel Architectures. Procedia Computer Science<\/i>, 4<\/i>, 1964-1966. DOI<\/a><\/div>\n
Schmidt, B., Aribowo, H., Dang, H.-V. (2011). Iterative Sparse Matrix-Vector Multiplication for Integer Factorization on GPUs<\/i>. 413-424. DOI<\/a><\/div>\n
Zheng, Z., Nguyen, T.-D., Schmidt, B. (2011). CRiSPy-CUDA: Computing Species Richness in 16S rRNA Pyrosequencing Datasets with CUDA<\/i>. 37-49. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Shi, H., Schmidt, B., Liu, W., M\u00fcller-Wittig, W. (2011). Parallel mutual information estimation for inferring gene regulatory networks on GPUs. BMC Research Notes<\/i>, 4<\/i>(1). DOI<\/a><\/div>\n
Althaus, E., Canzar, S., Elbassioni, K., et al. (2011). Approximation Algorithms for the Interval Constrained Coloring Problem. Algorithmica<\/i>, 61<\/i>(2), 342-361. DOI<\/a><\/div>\n
Schulze, R., Heil, U., Gro\u03b2 D., et al. (2011). Artefacts in CBCT: a review. Dentomaxillofacial Radiology<\/i>, 40<\/i>, 265-273. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hemmer, M., Dupont, L., Petitjean, S., Sch\u00f6mer, E. (2011). A complete, exact and efficient implementation for computing the edge-adjacency graph of an arrangement of quadrics. Journal of Symbolic Computation<\/i>, 46<\/i>, 467-494. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B., Maskell, D. L. (2011). DecGPU: distributed error correction on massively parallel graphics processing units using CUDA and MPI. BMC BIOINFORMATICS<\/i>, 12<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kuttippurathu, L., Hsing, M., Liu, Y., et al. (2011). CompleteMOTIFs: DNA motif discovery platform for transcription factor binding experiments. BIOINFORMATICS<\/i>, 27<\/i>(5), 715-717. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Buchwald, F., Girschick, T., Seeland, M., Kramer, S. (2011). Using local models to improve (Q)SAR predictivity. Molecular informatics<\/i>, 30<\/i>(2-3), Seiten: 205-218. Author\/Publisher URL<\/a><\/div>\n
Buchwald, F., Richter, L., Kramer, S. (2011). Predicting a small molecule-kinase interaction map : a machine learning approach. Journal of cheminformatics<\/i>, 3<\/i>, Art. 22. Author\/Publisher URL<\/a><\/div>\n
Dehof, A. K., Rurainski, A., Bui, Q. B. A., et al. (2011). Automated bond order assignment as an optimization problem. Bioinformatics<\/i>, 27<\/i>, 619-625.<\/div>\n
Hamp, T., Birzele, F., Buchwald, F., Kramer, S. (2011). Improving structure alignment-based prediction of SCOP families using Vorolign kernels. Bioinformatics<\/i>, 27<\/i>(2), Seiten: 204-210. Author\/Publisher URL<\/a><\/div>\n
Kneissl, B., Mueller, S. C., Tautermann, C. S., Hildebrandt, A. (2011). String Kernels and High-Quality Data Set for Improved Prediction of Kinked Helices in \u03b1-Helical Membrane Proteins. Journal of chemical information and modeling<\/i>, 51<\/i>, 3017-3025.<\/div>\n
Liu, W., Schmidt, B., Mueller-Wittig, W. (2011). CUDA-BLASTP: Accelerating BLASTP on CUDA-Enabled Graphics Hardware. IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS<\/i>, 8<\/i>(6), 1678-1684. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B., Maskell, D. L. (2011). Parallelized short read assembly of large genomes using de Bruijn graphs. BMC bioinformatics<\/i>, 12<\/i>, Art. 354. Author\/Publisher URL<\/a><\/div>\n
Maunz, A., Helma, C., Kramer, S. (2011). Efficient mining for structurally diverse subgraph patterns in large molecular databases. Machine learning<\/i>, 83<\/i>(2), Seiten: 193-218. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Buchwald, F., Girschick, T., Frank, E., and Kramer, S. (2010). Fast conditional density estimation for quantitative structure-activity relationships. In Proceedings of the Twenty-Fourth AAAI Conference on Artificial Intelligence and the Twenty-Second Innovative Applications of Artificial Intelligence Conference : 11 – 15 July 2010, Atlanta, Georgia, USA. Vol. 3. Special track on AI and the web<\/i> (pp. Seiten: 1268-1273). Menlo Park, Calif.:AAAI Press.<\/div>\n
Endler, S., and Perl, J. (2010). Leistungsoptimierung beim Marathon mit sportinformatischen Modellen. In J. Wiemeyer (ed.), Sportinformatik trifft Sporttechnologie : Abstractband ; Tagung der dvs-Sektion Sportinformatik und der deutschen interdisziplin\u00e4ren Vereinigung f\u00fcr Sporttechnologie vom 15. – 17. September 2010 in Darmstadt<\/i> (pp. Seiten: 152-154). Darmstadt:Inst. f\u00fcr Sportwiss. d. Techn. Univ.<\/div>\n
Endler, S., and Perl, J. (2010). Leistungsoptimierung beim Marathon mit sportinformatischen Modellen. In K. Mattes (ed.), Bewegung und Leistung – Sport, Gesundheit & Alter : 8. Gemeinsames Symposium der dvs-Sektionen Biomechanik, Sportmotorik und Trainingswissenschaft vom 02. – 04. September 2010 in Hamburg ; Abstracts<\/i> (pp. Seiten: 98-98). Hamburg:Feldhaus, Ed. Czwalina.<\/div>\n
Gajananan, K., Nakasone, A., Hildebrandt, A., and Prendinger, H. (2010). A novel three-dimensional collaborative online platform for bio-molecular modeling<\/i> (pp. 44-55).<\/div>\n
Ganzert, S., Guttmann, J., Steinmann, D., and Kramer, S. (2010). Equation discovery for model identification in respiratory mechanics of the mechanically ventilated human lung. In B. Pfahringer (ed.), Discovery science : 13th international conference ; proceedings \/ DS 2010, Canberra, Australia, October 6 – 8, 2010<\/i> (pp. Seiten: 296-310). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Grunz, A., Perl, J., Memmert, D., and Endler, S. (2010). Klassifizierung taktischer Muster im Fussball mit hierarchischen Neuronalen Netzen. In J. Wiemeyer (ed.), Sportinformatik trifft Sporttechnologie : Abstractband ; Tagung der dvs-Sektion Sportinformatik und der deutschen interdisziplin\u00e4ren Vereinigung f\u00fcr Sporttechnologie vom 15. – 17. September 2010 in Darmstadt<\/i> (pp. Seiten: 74-75). Darmstadt:Inst. f\u00fcr Sportwiss. d. Techn. Univ.<\/div>\n
Hopf, T., and Kramer, S. (2010). Mining class-correlated patterns for sequence labeling. In Discovery Science : 13th International Conference, DS 2010, Canberra, Australia, October 6-8, 2010<\/i> (pp. Seiten: 311-325). Berlin u.a.:Springer Berlin Heidelberg. Author\/Publisher URL<\/a><\/div>\n
Hussong, R., and Hildebrandt, A. (2010). Signal processing in proteomics. In Proteome Bioinformatics<\/i> (pp. 145-161). Humana Press.<\/div>\n
Kramer, S. (2010). Inductive Database Approach to Graphmining. In C. Sammut and G. I. Webb (eds.), Encyclopedia of Machine Learning<\/i> (pp. 522-523). Springer. DOI<\/a><\/div>\n
Maunz, A., Helma, C., Cramer, T., and Kramer, S. (2010). Latent structure pattern mining. In J. Balcazar (ed.), Machine learning and knowledge discovery in databases : European conference ; proceedings \/ ECML PKDD 2010, Barcelona, Spain, September 20 – 24, 2010. Vol. 2. Lecture notes in artificial intelligence<\/i> (pp. Seiten: 353-368). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
M\u00fcller, M., and Kramer, S. (2010). Integer linear programming models for constrained clustering. In B. Pfahringer (ed.), Discovery science : 13th international conference ; proceedings \/ DS 2010, Canberra, Australia, October 6 – 8, 2010<\/i> (pp. Seiten: 159-173). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Richter, L., Augustin, R., and Kramer, S. (2010). Finding relational associations in HIV resistance mutation data. In L. De Raedt (ed.), Inductive Logic Programming : 19th International Conference, ILP 2009, Leuven, Belgium, July 02-04, 2009<\/i> (pp. Seiten: 202-208). Berlin u.a.:Springer Berlin Heidelberg. Author\/Publisher URL<\/a><\/div>\n
Richter, L., Wicker, J., and Kramer, S. (2010). SINDBAD and SiQL : overview, applications and future developments. In S. D\u017eeroski (ed.), Inductive databases and constraint-based data mining<\/i> (pp. Seiten: 289-310). New York:Springer New York.<\/div>\n
R\u00fcckert, U., Girschick, T., Buchwald, F., and Kramer, S. (2010). Adapted transfer of distance measures for quantitative structure-activity relationships. In B. Pfahringer (ed.), Discovery science : 13th international conference ; proceedings \/ DS 2010, Canberra, Australia, October 6 – 8, 2010<\/i> (pp. Seiten: 341-355). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Seeland, M., Girschick, T., Buchwald, F., and Kramer, S. (2010). Online structural graph clustering using frequent subgraph mining. In J. Balcazar (ed.), Machine learning and knowledge discovery in databases : European conference ; proceedings \/ ECML PKDD 2010, Barcelona, Spain, September 20 – 24, 2010. Vol. 3. Lecture notes in artificial intelligence<\/i> (pp. Seiten: 213-228). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Zheng, Z., Schmidt, B., Bourque, G. (2010). Prediction of low coverage prone regions for Illumina sequencing projects using a support vector machine. 2010 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)<\/i>, 13-16. DOI<\/a><\/div>\n
Granados, M., Ajdin, B., Wand, M., et al. (2010). Optimal HDR reconstruction with linear digital cameras. 2010 IEEE Computer Society Conference on Computer Vision and Pattern Recognition<\/i>, 215-222. DOI<\/a><\/div>\n
Schmidt, B., Maskell, D. (2010). Second Workshop on using Emerging Parallel Architectures. Procedia Computer Science<\/i>, 1<\/i>(1), 1015-1017. DOI<\/a><\/div>\n
Shi, H., Schmidt, B., Liu, W., M\u00fcller-Wittig, W. (2010). Quality-score guided error correction for short-read sequencing data using CUDA. Procedia Computer Science<\/i>, 1<\/i>(1), 1129-1138. DOI<\/a><\/div>\n
Bouros, P., Vassiliou, Y. (2010). Evaluating path queries over route collections. 2010 IEEE 26th International Conference on Data Engineering Workshops (ICDEW 2010)<\/i>, 325-328. DOI<\/a><\/div>\n
Chang, W., Huang, Q.-X., Li, H., et al. (2010). Geometric Registration for Deformable Shapes. In U. Assarsson and D. Weiskopf (eds.), Eurographics (Tutorials)<\/i>. Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Kerber, J., Bokeloh, M., Wand, M., et al. (2010). Feature Preserving Sketching of Volume Data. In R. Koch, A. Kolb, and C. Rezk-Salama (eds.), VMV<\/i> (pp. 195-202). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Kramer, S. (2010). Learning Real-Time Automata from Multi-Attribute Event Logs. In R. G. Pensa, F. Cordero, C. Rouveirol, et al. (eds.), Proceedings of the 1st Workshop on Dynamic Networks and Knowledge Discovery, Barcelona, Spain, September 24, 2010<\/i> (Vols. 655). CEUR-WS.org. Author\/Publisher URL<\/a><\/div>\n
Marsalek, L., Dehof, A. K., Georgiev, I., et al. (2010). Real-time ray tracing of complex molecular scenes. 2010 14th International Conference Information Visualisation<\/i>, 239-245.<\/div>\n
Phillips, M., Georgiev, I., Dehof, A. K., et al. (2010). Measuring properties of molecular surfaces using ray casting. 2010 IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum (IPDPSW)<\/i>, 1-7.<\/div>\n
von Dziegielewski, A., Erbes, R., Sch\u00f6mer, E. (2010). Conservative swept volume boundary approximation. In G. Elber, A. Fischer, J. Keyser, M.-S. Kim (eds.), ACM Symposium on Solid and Physical Modeling, Proceedings of the 15th ACM Symposium on Solid and Physical Modeling, SPM 2010, Haifa, Israel, September 1-3, 2010<\/i> (pp. 171-176). ACM. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
\n\n\t\n\t
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Althaus, E., Canzar, S., Ehrler, C., et al. (2010). Computing H\/D-Exchange rates of single residues from data of proteolytic fragments. BMC Bioinformatics<\/i>, 11<\/i>(1). DOI<\/a><\/div>\n
Liu, Y., Schmidt, B., Maskell, D. L. (2010). CUDASW++2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions. BMC Research Notes<\/i>, 3<\/i>(1). DOI<\/a><\/div>\n
Liu, Y., Schmidt, B., Liu, W., Maskell, D. L. (2010). CUDA-MEME: Accelerating motif discovery in biological sequences using CUDA-enabled graphics processing units. PATTERN RECOGNITION LETTERS<\/i>, 31<\/i>(14), 2170-2177. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Ahmad, S., Chetty, M., Schmidt, B. (2010). Pattern Recognition in Bioinformatics. Pattern Recognition Letters<\/i>, 31<\/i>(14), 2071-2072. DOI<\/a><\/div>\n
Br\u00fcllmann, D., Seelge, M., Sch\u00f6mer, E., et al. (2010). Alignment of cone beam computed tomography data using intra-oral fiducial markers. Computerized Medical Imaging and Graphics<\/i>, 34<\/i>, 543-552. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, Y., Schmidt, B., Maskell, D. L. (2010). MSAProbs: multiple sequence alignment based on pair hidden Markov models and partition function posterior probabilities. BIOINFORMATICS<\/i>, 26<\/i>(16), 1958-1964. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schmidt, B. (ed.). (2010). Bioinformatics<\/i>. Published online. DOI<\/a><\/div>\n
Wirawan, A., Kwoh, C. K., Schmidt, B. (2010). Multi-threaded vectorized distance matrix computation on the CELL\/BE and x86\/SSE2 architectures. BIOINFORMATICS<\/i>, 26<\/i>(10), 1368-1369. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Shi, H., Schmidt, B., Liu, W., Mueller-Wittig, W. (2010). A Parallel Algorithm for Error Correction in High-Throughput Short-Read Data on CUDA-Enabled Graphics Hardware. JOURNAL OF COMPUTATIONAL BIOLOGY<\/i>, 17<\/i>(4), 603-615. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gross, D., Heil, U., Schulze, R., et al. (2010). GPU-Based Volume Reconstruction from Very Few Arbitrarily Aligned X-Ray Images. SIAM Journal on Scientific Computing<\/i>, 31<\/i>, 4204-4221. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Hachenberger, P. (2010). Fully Automatic Trunk Packing with Free Placements. CoRR<\/i>, abs\/1008.3773<\/i>.<\/div>\n
Edelstein, M., Buchwald, F., Richter, L., Kramer, S. (2010). Integrating background knowledge from internet databases into predictive toxicology models. SAR and QSAR in environmental research<\/i>, 21<\/i>(1-2), Seiten: 21-35. Author\/Publisher URL<\/a><\/div>\n
Gregorius, B., Schauml\u00f6ffel, D., Hildebrandt, A., Tholey, A. (2010). Characterization of metal-labelled peptides by matrix-assisted laser desorption\/ionization mass spectrometry and tandem mass spectrometry. Rapid Communications in Mass Spectrometry<\/i>, 24<\/i>, 3279-3289.<\/div>\n
Hardy, B., Douglas, N., Helma, C., et al. (2010). Collaborative development of predictive toxicology applications. Journal of cheminformatics<\/i>, 2<\/i>, Art. 7. Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A., Dehof, A. K., Rurainski, A., et al. (2010). BALL-biochemical algorithms library 1.3. BMC bioinformatics<\/i>, 11<\/i>, 531-531.<\/div>\n
Schmidt, J., Hapfelmeier, A., M\u00fcller, M., et al. (2010). Interpreting PET scans by structured patient data : a data mining case study in dementia research. Knowledge and information systems<\/i>, 24<\/i>(1), Seiten: 149-170. Author\/Publisher URL<\/a><\/div>\n
Singh, K. K., Erkelenz, S., Rattay, S., et al. (2010). Human SAP18 mediates assembly of a splicing regulatory multiprotein complex via its ubiquitin-like fold. RNA<\/i>, 16<\/i>, 2442-2454.<\/div>\n
Smialowski, P., Frishman, D., Kramer, S. (2010). Pitfalls of supervised feature selection. Bioinformatics<\/i>, 26<\/i>(3), Seiten: 440-443. Author\/Publisher URL<\/a><\/div>\n
Weggler, S., Rutka, V., Hildebrandt, A. (2010). A new numerical method for nonlocal electrostatics in biomolecular simulations. Journal of Computational Physics<\/i>, 229<\/i>, 4059-4074.<\/div>\n
Wicker, J., Fenner, K., Ellis, L., et al. (2010). Predicting biodegradation products and pathways : a hybrid knowledge- and machine learning-based approach. Bioinformatics<\/i>, 26<\/i>(6), Seiten: 814-821. Author\/Publisher URL<\/a><\/div>\n
Zhang, F., Weggler, S., Ziller, M. J., et al. (2010). Universality of protein reentrant condensation in solution induced by multivalent metal ions. Proteins: Structure, Function, and Bioinformatics<\/i>, 78<\/i>, 3450-3457.<\/div>\n
Zimek, A., Buchwald, F., Frank, E., Kramer, S. (2010). A study of hierarchical and flat classification of proteins. IEEE ACM transactions on computational biology and bioinformatics<\/i>, 7<\/i>(3), Seiten: 563-571. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Other<\/h3>\n\t
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Althaus, E., and Hachenberger, P. (2010). Fully Automatic Trunk Packing with Free Placements. In CoRR: Vol. abs\/1008.3773<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Ganzert, S., Kramer, S., M\u00f6ller, K., et al. (2009). Prediction of mechanical lung parameters using gaussian process models. In C. Combi (ed.), Artificial intelligence in medicine : 12th Conference on Artificial Intelligence in Medicine, AIME 2009, Verona, Italy, July 18 – 22, 2009<\/i> (pp. Seiten: 380-384). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n
Lipowsky, C., Dranischnikow, E., G\u00f6ttler, H., et al. (2009). Alignment of noisy and uniformly scaled time series. In S. S. Bhowmick (ed.), Database and expert systems applications : 20th international conference ; proceedings \/ DEXA 2009, Linz, Austria, August 31 – September 4, 2009<\/i> (pp. Seiten: 675-688). Berlin:Springer. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Maunz, A., Helma, C., Kramer, S. (2009). Large-scale graph mining using backbone refinement classes. In Proceedings of the 15th ACM SIGKDD international conference on Knowledge discovery and data mining<\/i> (pp. Seiten: 617-626). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
M\u00f6ller, K., Ganzert, S., Kramer, S., et al. (2009). Identifying mathematical models of the mechanically ventilated lung using equation discovery. In O. D\u00f6ssel (ed.), World Congress on Medical Physics and Biomedical Engineering, September 7 – 12, 2009, Munich, Germany<\/i> (pp. Seiten: 1524-1527). Berlin u.a.:Springer Berlin Heidelberg. Author\/Publisher URL<\/a><\/div>\n
M\u00fcller, M., Rosales, R., Steck, H., et al. (2009). Data-efficient information-theoretic test selection. In Artificial Intelligence in Medicine : 12th Conference on Artificial Intelligence in Medicine, AIME 2009, Verona, Italy, July 18-22, 2009<\/i> (pp. Seiten: 410-415). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n
M\u00fcller, M., Rosales, R., Steck, H., et al. (2009). Subgroup discovery for test selection : a novel approach and its application to breast cancer diagnosis. In N. M. Adams (ed.), Advances in intelligent data analysis VIII : 8th International Symposium on Intelligent Data Analysis, IDA 2009, Lyon, France, August 31 – September 2, 2009<\/i> (pp. Seiten: 119-130). Berlin u.a.:Springer.<\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Lasowski, R., Tevs, A., Seidel, H.-P., Wand, M. (2009). A probabilistic framework for partial intrinsic symmetries in geometric data. 2009 IEEE 12th International Conference on Computer Vision<\/i>, 963-970. DOI<\/a><\/div>\n
Yongchao Liu, Schmidt, B., Maskell, D. L. (2009). MSA-CUDA: Multiple Sequence Alignment on Graphics Processing Units with CUDA. 2009 20th IEEE International Conference on Application-specific Systems, Architectures and Processors<\/i>, 121-128. DOI<\/a><\/div>\n
Hasler, N., Rosenhahn, B., Thormahlen, T., et al. (2009). Markerless Motion Capture with unsynchronized moving cameras. 2009 IEEE Conference on Computer Vision and Pattern Recognition<\/i>, 224-231. DOI<\/a><\/div>\n
Meyer-Baese, A., Cappendijk, S., Althaus, E. (2009). Global uniform stability analysis of biological networks with different time-scales under perturbations. 2009 International Joint Conference on Neural Networks<\/i>, 2098-2102. DOI<\/a><\/div>\n
Tevs, A., Bokeloh, M., Wand, M., et al. (2009). Isometric registration of ambiguous and partial data. 2009 IEEE Conference on Computer Vision and Pattern Recognition<\/i>, 1185-1192. DOI<\/a><\/div>\n
Haixiang Shi, Schmidt, B., Weiguo Liu, Muller-Wittig, W. (2009). Accelerating error correction in high-throughput short-read DNA sequencing data with CUDA. 2009 IEEE International Symposium on Parallel &amp; Distributed Processing<\/i>, 1-8. DOI<\/a><\/div>\n
Yongchao Liu, Schmidt, B., Maskell, D. L. (2009). Parallel reconstruction of neighbor-joining trees for large multiple sequence alignments using CUDA. 2009 IEEE International Symposium on Parallel &amp; Distributed Processing<\/i>, 1-8. DOI<\/a><\/div>\n
Althaus, E., Canzar, S., Ehrler, C., et al. (2009). Discrete Fitting of Hydrogen-Deuterium-Exchange-data of Overlapping Fragments. In H. R. Arabnia and M. Q. Yang (eds.), BIOCOMP<\/i> (pp. 496-502). CSREA Press. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Dumitriu, D. (2009). Fast and Accurate Bounds on Linear Programs. In J. Vahrenhold (ed.), SEA<\/i> (Vols. 5526, pp. 40-50). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Klau, G. W., Kohlbacher, O., et al. (2009). Integer Linear Programming in Computational Biology. In S. Albers, H. Alt, and S. N\u00e4her (eds.), Efficient Algorithms<\/i> (Vols. 5760, pp. 199-218). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Kruglov, E., Weidenbach, C. (2009). Superposition Modulo Linear Arithmetic SUP(LA). In S. Ghilardi and R. Sebastiani (eds.), FroCoS<\/i> (Vols. 5749, pp. 84-99). Springer. Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Skiadopoulos, S., Dalamagas, T., et al. (2009). Evaluating Reachability Queries over Path Collections. In M. Winslett (ed.), Scientific and Statistical Database Management, 21st International Conference, SSDBM 2009, New Orleans, LA, USA, June 2-4, 2009, Proceedings<\/i> (Vols. 5566, pp. 398-416). Springer. DOI<\/a><\/div>\n
Chen, Y., Schmidt, B., Maskell, D. L. (2009). A Reconfigurable Bloom Filter Architecture for BLASTN<\/i>. 40-49. DOI<\/a><\/div>\n
Dranischnikow, E., Sch\u00f6mer, E., Schwanecke, U., et al. (2009). A parallel approach for alignment of multi-modal gridbased data. In H. Weghorn and P. T. Isa\u00edas (eds.), Proceedings of the IADIS International Conference Applied Computing 2009, 19-21 November, Rome, Italy, 2 Volumes<\/i> (pp. 330-337). IADIS Press.<\/div>\n
Gallenbacher, J. (2009). Abenteuer Informatik – “Informatik begreifen” w\u00f6rtlich gemeint. In B. Koerber (ed.), Zukunft braucht Herkunft: 25 Jahre “INFOS – Informatik und Schule”. 13. GI-Fachtagung “Informatik und Schule”, 21. bis 24. September 2009 an der Freien Universit\u00e4t Berlin: Vol. P-156<\/i> (pp. 28-37). GI. Author\/Publisher URL<\/a><\/div>\n
Hemmer, M., Limbach, S., Sch\u00f6mer, E. (2009). Continued Work on the Computation of an Exact Arrangement of Quadrics<\/i>.<\/div>\n
Meyer-B\u00e4se, A., Cappendijk, S., Althaus, E. (2009). Robust Stability Analysis of the Tryptophan Regulatory Network of E.Coli. In H. R. Arabnia and M. Q. Yang (eds.), BIOCOMP<\/i> (pp. 510-513). CSREA Press. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Maskell, D. L. (2009). Workshop on Using Emerging Parallel Architectures for Computational Science. In G. Allen, J. Nabrzyski, E. Seidel, et al. (eds.), ICCS (1)<\/i> (Vols. 5544, pp. 861-863). Springer. Author\/Publisher URL<\/a><\/div>\n
Wach, C., Gallenbacher, J. (2009). Spielend Sortieren mit Las Vegas Cardsort. In B. Koerber (ed.), Zukunft braucht Herkunft: 25 Jahre “INFOS – Informatik und Schule”. 13. GI-Fachtagung “Informatik und Schule”, 21. bis 24. September 2009 an der Freien Universit\u00e4t Berlin: Vol. P-156<\/i> (pp. 256-267). GI. Author\/Publisher URL<\/a><\/div>\n
Wirawan, A., Schmidt, B., Kwoh, C. K. (2009). Pairwise Distance Matrix Computation for Multiple Sequence Alignment on the Cell Broadband Engine<\/i>. 954-963. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Schmidt, B., Sinha, R., Beresford-Smith, B., Puglisi, S. J. (2009). A fast hybrid short read fragment assembly algorithm. BIOINFORMATICS<\/i>, 25<\/i>(17), 2279-2280. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schroeder, J., Schroeder, H., Puglisi, S. J., et al. (2009). SHREC: a short-read error correction method. BIOINFORMATICS<\/i>, 25<\/i>(17), 2157-2163. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Oliver, T. F., Schmidt, B., Jakop, Y., Maskell, D. L. (2009). High Speed Biological Sequence Analysis With Hidden Markov Models on Reconfigurable Platforms. IEEE TRANSACTIONS ON INFORMATION TECHNOLOGY IN BIOMEDICINE<\/i>, 13<\/i>(5), 740-746. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schneider, J. J., Mueller, A., Schoemer, E. (2009). Ultrametricity property of energy landscapes of multidisperse packing problems. PHYSICAL REVIEW E<\/i>, 79<\/i>(3). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Mueller, A., Schneider, J. J., Schoemer, E. (2009). Packing a multidisperse system of hard disks in a circular environment. PHYSICAL REVIEW E<\/i>, 79<\/i>(2). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Duchrow, T., Shtatland, T., Guettler, D., et al. (2009). Enhancing navigation in biomedical databases by community voting and database-driven text classification. BMC bioinformatics<\/i>, 10<\/i>, Art. 317. Author\/Publisher URL<\/a><\/div>\n
Hussong, R., Gregorius, B., Tholey, A., Hildebrandt, A. (2009). Highly accelerated feature detection in proteomics data sets using modern graphics processing units. Bioinformatics<\/i>, 25<\/i>, 1937-1943.<\/div>\n
Kneissl, B., Leonhardt, B., Hildebrandt, A., Tautermann, C. S. (2009). Revisiting automated G-protein coupled receptor modeling: the benefit of additional template structures for a neurokinin-1 receptor model. Journal of medicinal chemistry<\/i>, 52<\/i>, 3166-3173.<\/div>\n
Liu, Y., Maskell, D. L., Schmidt, B. (2009). CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units. BMC Research Notes<\/i>, 2<\/i>(1), 73-73. DOI<\/a><\/div>\n
Rurainski, A., Hildebrandt, A., Lenhof, H.-P. (2009). A consensus line search algorithm for molecular potential energy functions. Journal of computational chemistry<\/i>, 30<\/i>, 1499-1509.<\/div>\n
Wirawan, A., Schmidt, B., Zhang, H., Kwoh, C. K. (2009). High performance protein sequence database scanning on the Cell Broadband Engine. Sci. Program.<\/i>, 17<\/i>, 97-111.<\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Artamonova, I., Kramer, S., Frishman, D. (2008). Data mining in genome annotation. In D. Frishman (ed.), Modern genome annotation<\/i> (pp. Seiten: 191-212). Wien:Springer. Author\/Publisher URL<\/a><\/div>\n
Hapfelmeier, A., Schmidt, J., M\u00fcller, M., et al. (2008). Interpreting PET scans by structured patient data : a data mining case study in dementia research. In Eighth IEEE International Conference on Data Mining, 2008 : ICDM \u201908 ; Pisa, Italy, 15 – 19 Dec. 2008<\/i> (pp. Seiten: 213-222). Piscataway, NJ:IEEE. Author\/Publisher URL<\/a><\/div>\n
R\u00fcckert, U., Kramer, S. (2008). Kernel-based inductive transfer. In W. Daelemans (ed.), Machine learning and knowledge discovery in databases. Pt. 2<\/i> (pp. Seiten: 220-233). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n
Wicker, J., Richter, L., Kessler, K., Kramer, S. (2008). SINDBAD and SiQL : an inductive database and query language in the relational model. In W. Daelemans (ed.), Machine learning and knowledge discovery in databases. Pt. 2<\/i> (pp. Seiten: 690-694). Berlin u.a.:Springer. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Adams, B., Ovsjanikov, M., Wand, M., et al. (2008). Meshless Modeling of Deformable Shapes and their Motion. [Print]. Computer animation. ACM SIGGRAPH Symposium on Computer Animation<\/i>, 2008<\/i>, 77-86. DOI<\/a><\/div>\n
Althaus, E., Naujoks, R. (2008). Reconstructing Phylogenetic Networks with One Recombination. In C. C. McGeoch (ed.), WEA<\/i> (Vols. 5038, pp. 275-288). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Canzar, S. (2008). LASA: A Tool for Non-heuristic Alignment of Multiple Sequences. In M. Elloumi, J. K\u00fcng, M. Linial, et al. (eds.), BIRD<\/i> (Vols. 13, pp. 489-498). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Canzar, S., Elbassioni, K. M., et al. (2008). Approximating the Interval Constrained Coloring Problem. In J. Gudmundsson (ed.), SWAT<\/i> (Vols. 5124, pp. 210-221). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Canzar, S., Emmett, M. R., et al. (2008). Computing H\/D-exchange speeds of single residues from data of peptic fragments. In R. L. Wainwright, H. Haddad (eds.), SAC<\/i> (pp. 1273-1277). ACM. Author\/Publisher URL<\/a><\/div>\n
Berner, A., Bokeloh, M., Wand, M., et al. (2008). A Graph-Based Approach to Symmetry Detection. In H.-C. Hege, D. H. Laidlaw, R. Pajarola, O. G. Staadt (eds.), VG\/PBG@SIGGRAPH<\/i> (pp. 1-8). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Chen, C., Schmidt, B., Weiguo, L., M\u00fcller-Wittig, W. (2008). GPU-MEME: Using Graphics Hardware to Accelerate Motif Finding in DNA Sequences<\/i>. 448-459. DOI<\/a><\/div>\n
Jenke, P., Wand, M., Stra\u00dfer, W. (2008). Patch-Graph Reconstruction for Piecewise Smooth Surfaces. In O. Deussen, D. A. Keim, D. Saupe (eds.), VMV<\/i> (pp. 3-12). Aka GmbH. Author\/Publisher URL<\/a><\/div>\n
Richter, L., Wicker, J., Kessler, K., Kramer, S. (2008). An inductive database and query language in the relational model. In A. Kemper, P. Valduriez, N. Mouaddib, et al. (eds.), EDBT 2008, 11th International Conference on Extending Database Technology, Nantes, France, March 25-29, 2008, Proceedings<\/i> (Vols. 261, pp. 740-744). ACM. DOI<\/a><\/div>\n
Sacharidis, D., Bouros, P., Sellis, T. K. (2008). Caching Dynamic Skyline Queries. In B. Lud\u00e4scher, N. Mamoulis (eds.), Scientific and Statistical Database Management, 20th International Conference, SSDBM 2008, Hong Kong, China, July 9-11, 2008, Proceedings<\/i> (Vols. 5069, pp. 455-472). Springer. DOI<\/a><\/div>\n
Zhang, H., Schmidt, B., M\u00fcller-Wittig, W. (2008). Accelerating BLASTP on the Cell Broadband Engine<\/i>. 460-470. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Liu, W., Schmidt, B., Voss, G., Mueller-Wittig, W. (2008). Accelerating molecular dynamics simulations using Graphics Processing Units with CUDA. COMPUTER PHYSICS COMMUNICATIONS<\/i>, 179<\/i>(9), 634-641. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Oliver, T., Yeow, L. Y., Schmidt, B. (2008). Integrating FPGA acceleration into HMMer. PARALLEL COMPUTING<\/i>, 34<\/i>(11), 681-691. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Wirawan, A., Kwoh, C. K., Hieu, N. T., Schmidt, B. (2008). CBESW: Sequence Alignment on the Playstation 3. BMC BIOINFORMATICS<\/i>, 9<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Canzar, S. (2008). A Lagrangian relaxation approach for the multiple sequence alignment problem. Journal of Combinatorial Optimization<\/i>, 16<\/i>(2), 127-154. DOI<\/a><\/div>\n
Sturm, M., Bertsch, A., Groepl, C., et al. (2008). OpenMS-An open-source software framework for mass spectrometry. BMC BIOINFORMATICS<\/i>, 9<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Singh, A., Chen, C., Liu, W., et al. (2008). A hybrid computational grid architecture for comparative genomics. IEEE TRANSACTIONS ON INFORMATION TECHNOLOGY IN BIOMEDICINE<\/i>, 12<\/i>(2), 218-225. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Singh, D. T., Trehan, R., Schmidt, B., Bretschneider, T. (2008). Comparative phyloinformatics of virus genes at micro and macro levels in a distributed computing environment. BMC Bioinformatics<\/i>, 9<\/i>(S1). DOI<\/a><\/div>\n
Schulze, R., Heil, U., Weinheimer, O., et al. (2008). Accurate registration of random radiographic projections based on three spherical references for the purpose of few-view 3D reconstruction. Medical Physics<\/i>, 35<\/i>, 546-555. DOI<\/a><\/div>\n
Fenner, K., Gao, J., Kramer, S., et al. (2008). Data-driven extraction of relative reasoning rules to limit combinatorial explosion in biodegradation pathway prediction. Bioinformatics<\/i>, 24<\/i>(18), Seiten: 2079-2085. Author\/Publisher URL<\/a><\/div>\n
Fr\u00f6hler, S., Kramer, S. (2008). Inductive logic programming for gene regulation prediction. Machine Learning<\/i>, 70<\/i>(2-3), Seiten: 225-240. Author\/Publisher URL<\/a><\/div>\n
Gallenbacher, J. (2008). Abenteuer Informatik: Das Affenpuzzle. LOG IN<\/i>, 28<\/i>, 26-30.<\/div>\n
R\u00fcckert, U., Kramer, S. (2008). Margin-based first-order rule learning. Machine learning<\/i>, 70<\/i>(2-3), Seiten: 189-206. Author\/Publisher URL<\/a><\/div>\n
Schulz-Trieglaff, O., Hussong, R., Groepl, C., et al. (2008). Computational quantification of peptides from LC-MS data. Journal of Computational Biology<\/i>, 15<\/i>, 685-704.<\/div>\n
Sturm, M., Bertsch, A., Gr\u00f6pl, C., et al. (2008). OpenMS – an open-source software framework for mass spectrometry. BMC bioinformatics<\/i>, 9<\/i>(163), Art. 163. Author\/Publisher URL<\/a><\/div>\n
Sturm, M., Bertsch, A., Gr\u00f6pl, C., et al. (2008). OpenMS\u2013an open-source software framework for mass spectrometry. BMC bioinformatics<\/i>, 9<\/i>, 1-11.<\/div>\n
Zhang, F., Skoda, M. W. A., Jacobs, R. M. J., et al. (2008). Reentrant condensation of proteins in solution induced by multivalent counterions. Physical review letters<\/i>, 101<\/i>, 148101-148101.<\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Schmidt, B., Chen, C., Liu, W. (2007). Hierarchical Grid Computing for High\u2010Performance Bioinformatics<\/i> (pp. 87-121). Wiley. DOI<\/a><\/div>\n
D\u00f6nigus, D., Endler, S., Fischlin, M., et al. (2007). Security of invertible media authentication schemes revisited. In Information hiding : 9th international workshop ; revised selected papers \/ IH 2007, Saint Malo, France, June 11 – 13, 2007<\/i> (pp. Seiten: 189-203). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Fr\u00f6hler, S., Kramer, S. (2007). Inductive logic programming for gene regulation prediction. In S. Muggleton (ed.), Inductive logic programming : 16th international conference ; revised selected papers \/ ILP 2006, Santiago de Compostela, Spain, August 24 – 27, 2006<\/i> (pp. Seiten: 34-36). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A., Kohlbacher, O., Lenhof, H.-P. (2007). Modeling Protein-Protein and Protein-DNA Docking<\/i> (pp. 601-650). Wiley-VCH Verlag GmbH.<\/div>\n
R\u00fcckert, U., Kramer, S. (2007). Margin-based first-order rule learning. In S. Muggleton (ed.), Inductive Logic Programming : 16th International Conference, ILP 2006, Santiago de Compostela, Spain, August 24-27, 2006, Revised Selected Papers<\/i> (pp. Seiten: 46-48). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Books<\/h3>\n\t
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Gallenbacher, J. (2007). Abenteuer Informatik – IT zum Anfassen von Routenplaner bis Online-Banking<\/i>. Spektrum.<\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Dalamagas, T., Bouros, P., Galanis, T., et al. (2007). Mining user navigation patterns for personalizing topic directories. Proceedings of the 9th annual ACM international workshop on Web information and data management<\/i>, 81-88. DOI<\/a><\/div>\n
Liu, W., Muller-Wittig, W., Schmidt, B. (2007). Performance Predictions for General-Purpose Computation on GPUs. 2007 International Conference on Parallel Processing (ICPP 2007)<\/i>, 50-50. DOI<\/a><\/div>\n
Feng, J., Chakraborty, S., Schmidt, B., et al. (2007). Fast Schedulability Analysis Using Commodity Graphics Hardware. 13th IEEE International Conference on Embedded and Real-Time Computing Systems and Applications (RTCSA 2007)<\/i>, 400-408. DOI<\/a><\/div>\n
Althaus, E., Canzar, S. (2007). A Lagrangian Relaxation Approach for the Multiple Sequence Alignment Problem. In A. W. M. Dress, Y. Xu, and B. Zhu (eds.), COCOA<\/i> (Vols. 4616, pp. 267-278). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Baumann, T., Sch\u00f6mer, E., Werth, K. (2007). Trunk Packing Revisited<\/i>. 420-432. DOI<\/a><\/div>\n
Aung, Y. L., Maskell, D. L., Oliver, T. F., et al. (2007). C-Based Design Methodology for FPGA Implementation of ClustalW MSA<\/i>. 11-18. DOI<\/a><\/div>\n
Gallenbacher, J. (2007). Abenteuer Informatik oder “hands on” beim Probleml\u00f6semethoden. In S. E. Schubert (ed.), Didaktik der Informatik in Theorie und Praxis. INFOS 2007: 12. GI-Fachtagung Informatik und Schule, 19.-21. September 2007 in Siegen: Vol. P-112<\/i> (pp. 319-320). GI. Author\/Publisher URL<\/a><\/div>\n
Huang, Q.-X., Adams, B., Wand, M. (2007). Bayesian surface reconstruction via iterative scan alignment to an optimized prototype. In A. G. Belyaev and M. Garland (eds.), Symposium on Geometry Processing<\/i> (Vols. 257, pp. 213-223). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Hussong, R., Hildebrandt, A. (2007). The isotope wavelet: a signal theoretic framework for analyzing mass spectrometry data. Eleventh Annual International Conference on Research in Computational Molecular Biology<\/i>, 67<\/i>, 68-69.<\/div>\n
Hussong, R., Tholey, A., Hildebrandt, A. (2007). Efficient analysis of mass spectrometry data using the isotope wavelet. COMPLIFE 2007: The Third International Symposium on Computational Life Science<\/i>, 940<\/i>, 139-149.<\/div>\n
Oliver, T., Yeow, L. Y., Schmidt, B. (2007). High Performance Database Searching with HMMer on FPGAs. 2007 IEEE International Parallel and Distributed Processing Symposium<\/i>, 1-7. DOI<\/a><\/div>\n
Rajapakse, J. C., Schmidt, B., \u2026 Volkert, L. G. (eds.). (2007). Pattern Recognition in Bioinformatics, Second IAPR International Workshop, PRIB 2007, Singapore, October 1-2, 2007, Proceedings. PRIB<\/i>, 4774<\/i>.<\/div>\n
Rajapakse, M., Lin, F. (2007). Predicting Binding Peptides with Simultaneous Optimization of Entropy and Evolutionary Distance. In J. C. Rajapakse, B. Schmidt, and L. G. Volkert (eds.), PRIB<\/i> (Vols. 4774, pp. 349-355). Springer. Author\/Publisher URL<\/a><\/div>\n
R\u00fcckert, U., Kramer, S. (2007). Optimizing Feature Sets for Structured Data. In J. N. Kok, J. Koronacki, R. L. de M\u00e1ntaras, et al. (eds.), Machine Learning: ECML 2007, 18th European Conference on Machine Learning, Warsaw, Poland, September 17-21, 2007, Proceedings<\/i> (Vols. 4701, pp. 716-723). Springer. DOI<\/a><\/div>\n
Schulz-Trieglaff, O., Hussong, R., Gr\u00f6pl, C., et al. (2007). A fast and accurate algorithm for the quantification of peptides from mass spectrometry data. Annual International Conference on Research in Computational Molecular Biology<\/i>, 473-487.<\/div>\n
Wand, M., Berner, A., Bokeloh, M., et al. (2007). Interactive Editing of Large Point Clouds. In M. Botsch, R. Pajarola, B. Chen, M. Zwicker (eds.), PBG@Eurographics<\/i> (pp. 37-45). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Wand, M., Jenke, P., Huang, Q.-X., et al. (2007). Reconstruction of deforming geometry from time-varying point clouds. In A. G. Belyaev, M. Garland (eds.), Symposium on Geometry Processing<\/i> (Vols. 257, pp. 49-58). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Rajapakse, M., Schmidt, B., Feng, L., Brusic, V. (2007). Predicting peptides binding to MHC class II molecules using multi-objective evolutionary algorithms. BMC BIOINFORMATICS<\/i>, 8<\/i>. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Eisenbrand, F., Funke, S., Karrenbauer, A., et al. (2007). Packing a Truck \u2014 Now with a twist!. International Journal of Computational Geometry & Applications<\/i>, 17<\/i>, 505-527. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, W., Mueller-Wittig, W., Schmidt, B. (2007). Performance analysis of general-purpose computation on commodity graphics hardware:: A case study using bioinformatics. JOURNAL OF VLSI SIGNAL PROCESSING SYSTEMS FOR SIGNAL IMAGE AND VIDEO TECHNOLOGY<\/i>, 48<\/i>(3), 209-221. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Liu, W., Schmidt, B., Voss, G., Mueller-Wittig, W. (2007). Streaming algorithms for biological sequence alignment on GPUs. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 18<\/i>(9), 1270-1281. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Walters, J. P., Meng, X., Chaudhary, V., et al. (2007). MPI-HMMER-Boost: Distributed FPGA acceleration. JOURNAL OF VLSI SIGNAL PROCESSING SYSTEMS FOR SIGNAL IMAGE AND VIDEO TECHNOLOGY<\/i>, 48<\/i>(3), 223-238. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Lin, F., Schr\u00f6der, H., Schmidt, B. (2007). Solving the Bottleneck Problem in Bioinformatics Computing: An Architectural Perspective. The Journal of VLSI Signal Processing Systems for Signal, Image, and Video Technology<\/i>, 48<\/i>(3), 185-188. DOI<\/a><\/div>\n
Schimmler, M., Schmidt, B., Lang, H.-W., Heithecker, S. (2007). An area-efficient bit-serial integer and GF(2″) multiplier. MICROELECTRONIC ENGINEERING<\/i>, 84<\/i>(2), 253-259. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Gr\u00e9goire, M., Sch\u00f6mer, E. (2007). Interactive simulation of one-dimensional flexible parts. Computer-Aided Design<\/i>, 39<\/i>, 694-707. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A., Blossey, R., Rjasanow, S., et al. (2007). Electrostatic potentials of proteins in water: a structured continuum approach. Bioinformatics<\/i>, 23<\/i>, e99-e103.<\/div>\n
R\u00fcckert, U., Kramer, S. (2007). Margin-based first-order rule learning. Machine learning<\/i>, 70<\/i>(2\/3), Seiten: 189-206. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B. (2007). A survey of desktop grid applications for e-science. International Journal of Web and Grid Services<\/i>, 3<\/i>(3), 354-354. DOI<\/a><\/div>\n
Sommer, S., Kramer, S. (2007). Three data mining techniques to improve lazy structure-activity relationships for non-congeneric compounds. Journal of chemical information and modeling<\/i>, 47<\/i>(6), Seiten: 2035-2043. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
\n\n\t\n\t
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Fischer, J., Heun, V., and Kramer, S. (2006). Optimal string mining under frequency constraints. In J. F\u00fcrnkranz (ed.), Knowledge discovery in databases: PKDD 2006 ; 10th European Conference on Principles and Practice of Knowledge Discovery in Databases, Berlin, Germany, September 18 – 22, 2006 ; proceedings<\/i> (pp. Seiten: 139-150). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Richter, L., Hechtl, S., and Kramer, S. (2006). Leveraging chemical background knowledge for the prediction of growth inhibition. In Sixth IEEE Symposium on Bioinformatics and Bioengineering, 2006 : BIBE 2006 ; [16 – 18 October 2006, Arlington, Virginia ; proceedings]<\/i> (pp. Seiten: 319-324). Los Alamitos, Calif.:IEEE Computer Society. Author\/Publisher URL<\/a><\/div>\n
Richter, L., R\u00fcckert, U., and Kramer, S. (2006). Learning a predictive model for growth inhibition from the NCI DTP human tumor cell line screening data : does gene expression make a difference?. In R. B. Altman (ed.), Pacific Symposium on Biocomputing 2006 : Maui, Hawaii, 3 – 7 January 2006<\/i> (pp. Seiten: 596-607). Singapore:World Scientific Publ. Author\/Publisher URL<\/a><\/div>\n
R\u00fcckert, U., and Kramer, S. (2006). A statistical approach to rule learning. In W. W. Cohen (ed.), Proceedings \/ Twenty-Third International Conference on Machine Learning : [June 25 – 29, 2006, Pittsburgh, PA, USA] \/ [ACM]<\/i> (pp. Seiten: 785-792). New York:ACM Press. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Althaus, E., Naujoks, R. (2006). Computing steiner minimum trees in Hamming metric. SODA<\/i>, 172-181. Author\/Publisher URL<\/a><\/div>\n
Bokeloh, M., Wand, M. (2006). Hardware accelerated multi-resolution geometry synthesis. In M. Olano and C. H. S\u00e9quin (eds.), SI3D<\/i> (pp. 191-198). ACM. Author\/Publisher URL<\/a><\/div>\n
Lange, E., Gropl, C., Reinert, K., et al. (2006). High-Accuracy Peak Picking of Proteomics Data Using Wavelet Techniques. Pacific Symposium on Biocomputing<\/i>, 11<\/i>, 243-254.<\/div>\n
Lange, E., Gr\u00f6pl, C., Kohlbacher, O., Hildebrandt, A. (2006). High-accuracy peak picking of proteomics data. Dagstuhl Seminar Proceedings<\/i>.<\/div>\n
Liu, W., Schmidt, B., Voss, G., M\u00fcller-Wittig, W. (2006). GPU-ClustalW: Using Graphics Hardware to Accelerate Multiple Sequence Alignment<\/i>. 363-374. DOI<\/a><\/div>\n
Oliver, T. F., Schmidt, B., Jakop, Y., Maskell, D. L. (2006). Accelerating the Viterbi algorithm for Profile Hidden Markov Models using reconfigurable hardware. COMPUTATIONAL SCIENCE – ICCS 2006, PT 1, PROCEEDINGS<\/i>, 3991<\/i>, 522-529. Author\/Publisher URL<\/a><\/div>\n
Rajapakse, M., Schmidt, B., Brusic, V. (2006). Multi-objective evolutionary algorithm for discovering peptide binding motifs. APPLICATIONS OF EVOLUTIONARY COMPUTING, PROCEEDINGS<\/i>, 3907<\/i>, 149-158. Author\/Publisher URL<\/a><\/div>\n
Toll, H., Berger, P., Hofmann, A., et al. (2006). Glycosylation Patterns of Proteins Studied by Liquid Chromatography-Mass Spectrometry and Bioinformatic Tools. Dagstuhl Seminar Proceedings<\/i>.<\/div>\n
Weiguo Liu, Schmidt, B., Voss, G., et al. (2006). Bio-sequence database scanning on a GPU. Proceedings 20th IEEE International Parallel &amp; Distributed Processing Symposium<\/i>, 8 pp.-8 pp. DOI<\/a><\/div>\n
Wirawan, A., Schmidt, B. (2006). Parallel Discovery of Transcription Factor Binding Sites. APCCAS<\/i>, 700-703. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Chen, C., Schmidt, B. (2006). Constructing large suffix trees on a computational grid. JOURNAL OF PARALLEL AND DISTRIBUTED COMPUTING<\/i>, 66<\/i>(12), 1512-1523. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Eigenwillig, A., Kettner, L., Sch\u00f6mer, E., Wolpert, N. (2006). Exact, Efficient, and Complete Arrangement Computation for Cubic Curves. Comput. Geom. Theory Appl.<\/i>, 35<\/i>, 36-73.<\/div>\n
Liu, W., Schmidt, B. (2006). Parallel pattern-based systems for computational biology: A case study. IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS<\/i>, 17<\/i>(8), 750-763. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., C\u0103linescu, G., M\u0103ndoiu, I. I., et al. (2006). Power Efficient Range Assignment for Symmetric Connectivity in Static Ad Hoc Wireless Networks. Wireless Networks<\/i>, 12<\/i>(3), 287-299. DOI<\/a><\/div>\n
LIU, W. (2006). Mapping of Hierarchical Parallel Genetic Algorithms for Protein Folding onto Computational Grids. IEICE Transactions on Information and Systems<\/i>, E89-D<\/i>(2), 589-596. DOI<\/a><\/div>\n
Althaus, E., Caprara, A., Lenhof, H.-P., Reinert, K. (2006). A branch-and-cut algorithm for multiple sequence alignment. Mathematical Programming<\/i>, 105<\/i>(2-3), 387-425. DOI<\/a><\/div>\n
Sch\u00f6mer, E., Wolpert, N. (2006). An Exact and Efficient Approach for Computing a Cell in an Arrangement of Quadrics. Comput. Geom. Theory Appl.<\/i>, 33<\/i>, 65-97.<\/div>\n
Birzele, F., Kramer, S. (2006). A new representation for protein secondary structure prediction based on frequent patterns. Bioinformatics<\/i>, 22<\/i>(21), Seiten: 2628-2634. Author\/Publisher URL<\/a><\/div>\n
Blockeel, H., Jensen, D., Kramer, S. (2006). Introduction to the special issue on multi-relational data mining and statistical relational learning. Machine learning<\/i>, 62<\/i>(1), Seiten: 3-5. Author\/Publisher URL<\/a><\/div>\n
Keller, A., Ludwig, N., Comtesse, N., et al. (2006). A minimally invasive multiple marker approach allows highly efficient detection of meningioma tumors. BMC bioinformatics<\/i>, 7<\/i>, 539-539.<\/div>\n
K\u00fcntzer, J., Blum, T., Gerasch, A., et al. (2006). BN++\u2013A biological information system. Journal of Integrative Bioinformatics<\/i>, 3<\/i>, 148-161.<\/div>\n
Lenhof, H.-P., Kohlbacher, O., Kaufmann, M., et al. (2006). BN++-A Biological Information System. http:\/\/journal. imbio. de\/index. php? paper_id= 34<\/i>.<\/div>\n
Moll, A., Hildebrandt, A., Lenhof, H.-P., Kohlbacher, O. (2006). BALLView: a tool for research and education in molecular modeling. Bioinformatics<\/i>, 22<\/i>, 365-366.<\/div>\n
Oliver, T., Schmidt, B., Maskell, D., et al. (2006). High-speed Multiple Sequence Alignment on a reconfigurable platform. International Journal of Bioinformatics Research and Applications<\/i>, 2<\/i>(4), 394-394. DOI<\/a><\/div>\n
Perl, J., Endler, S. (2006). Training- and contest-scheduling in endurance sports by means of course profiles and PerPot-based analysis. International journal of computer science in sport<\/i>, 5<\/i>(2), Seiten: 42-46.<\/div>\n
Toll, H., Berger, P., Hofmann, A., et al. (2006). Glycosylation patterns of human chorionic gonadotropin revealed by liquid chromatography-mass spectrometry and bioinformatics. Electrophoresis<\/i>, 27<\/i>, 2734-2746.<\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Dong, L., Frank, E., and Kramer, S. (2005). Ensembles of balanced nested dichotomies for multi-class problems. In Knowledge discovery in databases: PKDD 2005 : 9th European Conference on Principles and Practice of Knowledge Discovery in Databases, Porto, Portugal, October 3 – 7, 2005<\/i> (pp. Seiten: 84-95). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Fischer, J., Heun, V., and Kramer, S. (2005). Fast frequent string mining using suffix arrays. In J. Han (ed.), Proceedings \/ Fifth IEEE International Conference on Data Mining, ICDM 2005 : 27 – 30 November 2005, Houston, Texas<\/i> (pp. Seiten: 609-612). Los Alamitos, Calif.:IEEE Computer Society. Author\/Publisher URL<\/a><\/div>\n
Harput, V., Kaindl, H., and Kramer, S. (2005). Extending function point analysis to object-oriented requirements specifications. In 2005 11th International Symposium on Software Metrics (METRICS) : 19 – 22 September 2005, Como, Italy \/ [IEEE]<\/i> (pp. Seiten: 10-39). Piscataway, NJ:IEEE Operations Center. Author\/Publisher URL<\/a><\/div>\n
Kramer, S., and Helma, C. (2005). Machine learning and data mining. In C. Helma (ed.), Predictive toxicology<\/i> (pp. Seiten: 223-254). Boca Raton:Taylor & Francis.<\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Lange, E., Reinert, K., Groepl, C., et al. (2005). OPENMS;: a generic open source framework for chromatography\/MS-based proteomics. MOLECULAR & CELLULAR PROTEOMICS<\/i>, 4<\/i>(8), S25-S25. Author\/Publisher URL<\/a><\/div>\n
Oliver, T., Schmidt, B., Maskell, D. (2005). Hyper customized processors for bio-sequence database scanning on FPGAs. Proceedings of the 2005 ACM\/SIGDA 13th international symposium on Field-programmable gate arrays<\/i>, 229-237. DOI<\/a><\/div>\n
Biber, P., Fleck, S., Busch, F., et al. (2005). 3D modeling of indoor environments by a mobile platform with a laser scanner and panoramic camera. EUSIPCO<\/i>, 1-4. Author\/Publisher URL<\/a><\/div>\n
Chen, C., Schmidt, B. (2005). Parallel Construction of Large Suffix Trees on a PC Cluster. In J. C. Cunha and P. D. Medeiros (eds.), Euro-Par<\/i> (Vols. 3648, pp. 1227-1236). Springer. Author\/Publisher URL<\/a><\/div>\n
Georgii, E., Richter, L., R\u00fcckert, U., Kramer, S. (2005). Analyzing microarray data using quantitative association rules. ECCB\/JBI\u201905 Proceedings, Fourth European Conference on Computational Biology\/Sixth Meeting of the Spanish Bioinformatics Network (Jornadas de BioInform\u00e1tica), Palacio de Congresos, Madrid, Spain, September 28 – October 1, 2005<\/i>, 129-129. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Harput, V., Kaindl, H., Kramer, S. (2005). Extending Function Point Analysis of Object-Oriented Requirements Specifications. 11th IEEE International Symposium on Software Metrics (METRICS 2005), 19-22 September 2005, Como Italy<\/i>, 39-39. DOI<\/a><\/div>\n
Kramer, S., Aufschild, V., Hapfelmeier, A., et al. (2005). Inductive Databases in the Relational Model: The Data as the Bridge. In F. Bonchi and J.-F. Boulicaut (eds.), Knowledge Discovery in Inductive Databases, 4th International Workshop, KDID 2005, Porto, Portugal, October 3, 2005, Revised Selected and Invited Papers<\/i> (Vols. 3933, pp. 124-138). Springer. DOI<\/a><\/div>\n
Kramer, S., \u2026 Pfahringer, B. (eds.). (2005). Inductive Logic Programming, 15th International Conference, ILP 2005, Bonn, Germany, August 10-13, 2005, Proceedings<\/i>. 3625<\/i>. DOI<\/a><\/div>\n
Oliver, T. F., Schmidt, B., Maskell, D. L., Vinod, A. P. (2005). A reconfigurable architecture for scanning biosequence databases. ISCAS (5)<\/i>, 4799-4802. Author\/Publisher URL<\/a><\/div>\n
Rajapakse, M., Wyse, L., Schmidt, B., Brusic, V. (2005). Deriving matrix of peptide-MHC interactions in diabetic mouse by genetic algorithm. INTELLIGENT DATA ENGINEERING AND AUTOMATED LEARNING IDEAL 2005, PROCEEDINGS<\/i>, 3578<\/i>, 440-447. Author\/Publisher URL<\/a><\/div>\n
Wetekam, G., Staneker, D., Kanus, U., Wand, M. (2005). A hardware architecture for multi-resolution volume rendering. In M. Mei\u00dfner and B.-O. Schneider (eds.), Graphics Hardware<\/i> (pp. 45-51). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Yanto, J., Oliver, T. F., Schmidt, B., Maskell, D. L. (2005). Biological Sequence Analysis with Hidden Markov Models on an FPGA. In T. Srikanthan, J. Xue, and C.-H. Chang (eds.), Asia-Pacific Computer Systems Architecture Conference<\/i> (Vols. 3740, pp. 429-439). Springer. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Liu, T., Schmidt, B. (2005). Parallel RNA secondary structure prediction using stochastic context-free grammars. CONCURRENCY AND COMPUTATION-PRACTICE & EXPERIENCE<\/i>, 17<\/i>(14), 1669-1685. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Oliver, T. F., Schmidt, B., Maskell, D. L. (2005). Reconfigurable architectures for bio-sequence database scanning on FPGAs. IEEE TRANSACTIONS ON CIRCUITS AND SYSTEMS II-EXPRESS BRIEFS<\/i>, 52<\/i>(12), 851-855. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Oliver, T., Schmidt, B., Nathan, D., et al. (2005). Using reconfigurable hardware to accelerate multiple sequence alignment with ClustalW. BIOINFORMATICS<\/i>, 21<\/i>(16), 3431-3432. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Chen, C. X., Schmidt, B. (2005). An adaptive grid implementation of DNA sequence alignment. FUTURE GENERATION COMPUTER SYSTEMS-THE INTERNATIONAL JOURNAL OF ESCIENCE<\/i>, 21<\/i>(7), 988-1003. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schulze, R. K. W., Weinheimer, O., Br\u00fcllmann, D. D., et al. (2005). Software for automated application of a reference-based method for a posteriori determination of the effective radiographic imaging geometry. Dentomaxillofacial Radiology<\/i>, 34<\/i>, 205-211. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Funke, S., Har-Peled, S., et al. (2005). Approximating k-hop minimum-spanning trees. Operations Research Letters<\/i>, 33<\/i>(2), 115-120. DOI<\/a><\/div>\n
Comtesse, N., Zippel, A., Walle, S., et al. (2005). Complex humoral immune response against a benign tumor: frequent antibody response against specific antigens as diagnostic targets. Proceedings of the National Academy of Sciences<\/i>, 102<\/i>, 9601-9606.<\/div>\n
Georgii, E., Richter, L., R\u00fcckert, U., Kramer, S. (2005). Analyzing microarray data using quantitative association rules. Bioinformatics<\/i>, 21<\/i>(Suppl. 2), Seiten: ii123-ii129. Author\/Publisher URL<\/a><\/div>\n
Li, L., Techel, D., Gretz, N., Hildebrandt, A. (2005). A novel transcriptome subtraction method for the detection of differentially expressed genes in highly complex eukaryotes – art. no. e136. NUCLEIC ACIDS RESEARCH<\/i>, 33<\/i>(16). DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Moll, A., Hildebrandt, A., Lenhof, H.-P., Kohlbacher, O. (2005). BALLView: An object-oriented molecular visualization and modeling framework. Journal of computer-aided molecular design<\/i>, 19<\/i>, 791-800.<\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Frank, E., and Kramer, S. (2004). Ensembles of nested dichotomies for multi-class problems. In R. Greiner (ed.), Proceedings \/ Twenty-First International Conference on Machine Learning : [July 4 – 8, 2004, Banff, Alberta, Canada]<\/i> (pp. Seiten: 305-312). Banff, Alberta, Canada:.<\/div>\n
R\u00fcckert, U., and Kramer, S. (2004). Frequent free tree discovery in graph data. In H. M. Haddad (ed.), Applied computing 2004 : proceedings of the 2004 ACM Symposium on Applied Computing, Nicosia, Cyprus, March 14 – 17, 2004<\/i> (pp. Seiten: 564-570). New York, NY:Association for Computing Machinery. Author\/Publisher URL<\/a><\/div>\n
R\u00fcckert, U., and Kramer, S. (2004). Towards tight bounds for rule learning. In R. Greiner (ed.), Proceedings \/ Twenty-First International Conference on Machine Learning : [July 4 – 8, 2004, Banff, Alberta, Canada]<\/i> (pp. Seiten: 711-718). Banff, Alberta, Canada:. Author\/Publisher URL<\/a><\/div>\n
R\u00fcckert, U., Richter, L., and Kramer, S. (2004). Quantitative association rules based on half-spaces : an optimization approach. In R. Rastogi (ed.), Proceedings \/ Fourth IEEE International Conference on Data Mining, 2004, ICDM 2004 : 1 – 4 Nov. 2004, [Brighton, United Kingdom]<\/i> (pp. Seiten: 507-510). Los Alamitos, Calif.:IEEE Computer Society. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Althaus, E., Eisenbrand, F., Funke, S., Mehlhorn, K. (2004). Point containment in the integer hull of a polyhedron. In J. I. Munro (ed.), SODA<\/i> (pp. 929-933). SIAM. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Karamanis, N., Koller, A. (2004). Computing Locally Coherent Discourses. In D. Scott, W. Daelemans, and M. A. Walker (eds.), ACL<\/i> (pp. 399-406). ACL. Author\/Publisher URL<\/a><\/div>\n
Bouros, P., Dalamagas, T., Sellis, T. K., Terrovitis, M. (2004). PatManQL: A Language to Manipulate Patterns and Data in Hierarchical Catalogs. In Y. Theodoridis and P. Vassiliadis (eds.), Proceedings of the Intl. Workshop on Pattern Representation and Management, Heraklion, Greece, March 18, 2004, PaRMa 2004 was held in conjunction with the 9th Int. Conference on Extending Database Technology (EDBT 2004)<\/i> (Vols. 96). CEUR-WS.org. Author\/Publisher URL<\/a><\/div>\n
Chen, C., Schmidt, B. (2004). Load Balancing for Hierarchical Grid Computing: A Case Study. In L. Boug\u00e9 and V. K. Prasanna (eds.), HiPC<\/i> (Vols. 3296, pp. 353-362). Springer. Author\/Publisher URL<\/a><\/div>\n
Liu, W. G., Schmidt, B. (2004). A generic parallel pattern-based system for bioinformatics. EURO-PAR 2004 PARALLEL PROCESSING, PROCEEDINGS<\/i>, 3149<\/i>, 989-996. Author\/Publisher URL<\/a><\/div>\n
Liu, W., Schmidt, B. (2004). A Tunable Coarse-Grained Parallel Algorithm for Irregular Dynamic Programming Applications. In L. Boug\u00e9 and V. K. Prasanna (eds.), HiPC<\/i> (Vols. 3296, pp. 91-100). Springer. Author\/Publisher URL<\/a><\/div>\n
Ramakrishnan, R., Agrawal, R., Freytag, J.-C., et al. (2004). Data Mining: The Next Generation. In R. Agrawal, J.-C. Freytag, and R. Ramakrishnan (eds.), Perspectives Workshop: Data Mining: The Next Generation, 11.07. – 16.07.2004<\/i> (Vols. 04292). Internationales Begegnungs- und Forschungszentrum f\u00fcr Informatik (IBFI), Schloss Dagstuhl, Germany. Author\/Publisher URL<\/a><\/div>\n
Wand, M. (2004). Punktbasierte Multiskalendarstellung.: Vol. D-5<\/i> (T. Dreier, O. G\u00fcnther, S. H\u00f6lldobler, et al., eds.; pp. 183-192). GI. Author\/Publisher URL<\/a><\/div>\n
Wand, M., Stra\u00dfer, W. (2004). Multi-Resolution Sound Rendering. In M. H. Gross, H. Pfister, M. Alexa, and S. Rusinkiewicz (eds.), PBG<\/i> (pp. 3-11). Eurographics Association. Author\/Publisher URL<\/a><\/div>\n
Wands, B. (2004). Thoughts on Hesse, Digital Art and Visual Music: excerpts from the “variations” artist statements (1999-2003). In S. Gollifer (ed.), SIGGRAPH Art Gallery<\/i> (pp. 128-130). ACM. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Schmidt, B., Feng, L., Laud, A., Santoso, Y. (2004). Development of distributed bioinformatics applications with GMP. CONCURRENCY AND COMPUTATION-PRACTICE & EXPERIENCE<\/i>, 16<\/i>(9), 945-959. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schimmler *, M., Schmidt, B., Lang \u2021, H.-W. (2004). A bit-serial floating-point unit for a massively parallel system on a chip. Parallel Algorithms and Applications<\/i>, 19<\/i>(2-3), 79-95. DOI<\/a><\/div>\n
Blockeel, H., Dzeroski, S., Kompare, B., et al. (2004). Experiments in predicting biodegradability. Applied artificial intelligence<\/i>, 18<\/i>(2), Seiten: 157-181. Author\/Publisher URL<\/a><\/div>\n
Helma, C., Kramer, S., De Raedt, L. (2004). Data mining and machine learning techniques for the identification of mutagenicity inducing substructures and structure activity relationships of noncongeneric compounds. Journal of chemical information and modeling<\/i>, 44<\/i>(4), Seiten: 1402-1411. Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A., Blossey, R., Rjasanow, S., et al. (2004). Novel formulation of nonlocal electrostatics. Physical review letters<\/i>, 93<\/i>, 108104-108104.<\/div>\n
Kaindl, H., Kramer, S., Hailing, M., Harput, V. (2004). Interactive metamodel-compliance checking of requirements in a semiformal representation. INCOSE International Symposium<\/i>, 14<\/i>(1), Seiten: 1154-1167. Author\/Publisher URL<\/a><\/div>\n
Kramer, S., Kaindl, H. (2004). Coupling and cohesion metrics for knowledge-based systems using frames and rules. ACM transactions on software engineering and methodology<\/i>, 13<\/i>(3), Seiten: 332-358. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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De Raedt, L., and Kramer, S. (2003). Inductive databases for bio- and chemo-informatics. In P. Frasconi (ed.), Artificial intelligence and heuristic methods in bioinformatics : [proceedings of the NATO Advanced Study Institute on Artificial Intelligence and Heuristic Methods in Bioinformatics, 1 – 11 October 2001, San Miniato, Italy]<\/i> (pp. Seiten: 193-207). Amsterdam:IOS Press.<\/div>\n
R\u00fcckert, U., and Kramer, S. (2003). Stochastic local search in k-Term DNF learning. In T. Fawcett (ed.), Proceedings \/ Twentieth International Conference on Machine Learning : [August 21 – 24, 2003, Washington, DC, USA]. Vol. 2<\/i> (pp. Seiten: 648-655). Menlo Park, Calif.:AAAI Press.<\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Ahmad, I., Jonker, P., Schmidt, B., Uhl, A. (2003). Topic Introduction. In H. Kosch, L. B\u00f6sz\u00f6rm\u00e9nyi, and H. Hellwagner (eds.), Euro-Par<\/i> (Vols. 2790, pp. 850-850). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Calinescu, G., Mandoiu, I. I., et al. (2003). Power efficient range assignment in ad-hoc wireless networks. WCNC<\/i>, 1889-1894. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Polzin, T., Daneshmand, S. V. (2003). Improving Linear Programming Approaches for the Steiner Tree Problem. In K. Jansen, M. Margraf, M. Mastrolilli, and J. D. P. Rolim (eds.), WEA<\/i> (Vols. 2647, pp. 1-14). Springer. Author\/Publisher URL<\/a><\/div>\n
Amor, M., Boo, M., del Rio, A., et al. (2003). A new algorithm for high-speed projection in point rendering applications. Euromicro Symposium on Digital System Design, 2003. Proceedings.<\/i>, 338-345. DOI<\/a><\/div>\n
Cehn, Schmidt. (2003). Computing large-scale alignments on a multi-cluster. Proceedings IEEE International Conference on Cluster Computing CLUSTR-03<\/i>, 38-45. DOI<\/a><\/div>\n
Kaindl, H., Kramer, S., Hailing, M., Harput, V. (2003). Metamodel-Compliance Checking of Requirements in a Semiformal Representation. In J. Eder and T. Welzer (eds.), The 15th Conference on Advanced Information Systems Engineering (CAiSE \u201903), Klagenfurt\/Velden, Austria, 16-20 June, 2003, CAiSE Forum, Short Paper Proceedings, Information Systems for a Connected Society<\/i> (Vols. 74). CEUR-WS.org. Author\/Publisher URL<\/a><\/div>\n
R\u00fcckert, U., Kramer, S. (2003). Generalized Version Space Trees. In J.-F. Boulicaut and S. Dzeroski (eds.), Proceedings of the Second International Workshop on Inductive Databases, 22 September, Cavtat-Dubrovnik, Croatia<\/i> (pp. 119-129). Rudjer Boskovic Institute, Zagreb, Croatia.<\/div>\n
Schimmler, M., Schmidt, B., Lang, H.-W. (2003). Design of a Bit-Serial Floating Point Unit for a Fine Grained Parallel Processor Array. In H. R. Arabnia and Y. Mun (eds.), PDPTA<\/i> (pp. 255-261). CSREA Press. Author\/Publisher URL<\/a><\/div>\n
Schimmler, M., Schmidt, B., Lang, H.-W., Heithecker, S. (2003). An Area-Efficient Bit-Serial Integer Multiplier. In H. R. Arabnia and L. T. Yang (eds.), VLSI<\/i> (pp. 131-137). CSREA Press. Author\/Publisher URL<\/a><\/div>\n
Wand, M., Stra\u00dfer, W. (2003). Multi-Resolution Point-Sample Raytracing. Graphics Interface<\/i>, 139-148. Author\/Publisher URL<\/a><\/div>\n
Weiguo Liu, Schmidt. (2003). Parallel design pattern for computational biology and scientific computing applications. Proceedings IEEE International Conference on Cluster Computing CLUSTR-03<\/i>, 456-459. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Althaus, E., Duchier, D., Koller, A., et al. (2003). An efficient graph algorithm for dominance constraints. Journal of Algorithms<\/i>, 48<\/i>(1), 194-219. DOI<\/a><\/div>\n
Helma, C., Kramer, S. (2003). A Survey of the predictive toxicology challenge 2000-2001. Bioinformatics<\/i>, 19<\/i>(10), Seiten: 1179-1182. Author\/Publisher URL<\/a><\/div>\n
Toivonen, H., Srinivasan, A., King, R., et al. (2003). Statistical evaluation of the predictive toxicology challenge 2000-2001. Bioinformatics<\/i>, 19<\/i>(10), Seiten: 1183-1193. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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Kersting, K., Raiko, T., Kramer, S., and De Raedt, L. (2002). Towards discovering structural signatures of Protein folds based on logical hidden Markov models. In R. B. Altman (ed.), Pacific Symposium on Biocomputing 2003 : Kauai, Hawaii, 3 – 7 January 2003<\/i> (pp. Seiten: 192-203). River Edge, NJ:World Scientific Publ.<\/div>\n
R\u00fcckert, U., Kramer, S., and De Raedt, L. (2002). Phase transitions and stochastic local search in k-term DNF learning. In T. Elomaa (ed.), Machine learning : proceedings \/ ECML 2002, 13th European Conference on Machine Learning, Helsinki, Finland, August 19 – 23, 2002<\/i> (pp. Seiten: 405-417). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Althaus, E., Bockmayr, A., Elf, M., et al. (2002). SCIL – Symbolic Constraints in Integer Linear Programming. In R. H. M\u00f6hring and R. Raman (eds.), ESA<\/i> (Vols. 2461, pp. 75-87). Springer. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Caprara, A., Lenhof, H.-P., Reinert, K. (2002). Multiple sequence alignment with arbitrary gap costs: Computing an optimal solution using polyhedral combinatorics. ECCB<\/i>, 4-16. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Fink, C. (2002). A Polyhedral Approach to Surface Reconstruction from Planar Contours. In W. J. Cook and A. S. Schulz (eds.), IPCO<\/i> (Vols. 2337, pp. 258-272). Springer. Author\/Publisher URL<\/a><\/div>\n
Bringmann, B., Kramer, S., Neubarth, F., et al. (2002). Transformation-Based Regression. In C. Sammut and A. G. Hoffmann (eds.), Machine Learning, Proceedings of the Nineteenth International Conference (ICML 2002), University of New South Wales, Sydney, Australia, July 8-12, 2002<\/i> (pp. 59-66). Morgan Kaufmann.<\/div>\n
Klein, J., Krokowski, J., Fischer, M., et al. (2002). The randomized sample tree: a data structure for interactive walkthroughs in externally stored virtual environments. In J. Shi, L. F. Hodges, H. Sun, and Q. Peng (eds.), VRST<\/i> (pp. 137-146). ACM. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Schroder, H., Schimmler, M. (2002). Massively parallel solutions for molecular sequence analysis. Proceedings 16th International Parallel and Distributed Processing Symposium<\/i>, 8 pp-8 pp. DOI<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Ganzert, S., Guttmann, J., Kersting, K., et al. (2002). Analysis of respiratory pressure-volume curves in intensive care medicine using inductive machine learning. Artif. Intell. Med.<\/i>, 26<\/i>(1-2), 69-86. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Kohlbacher, O., Lenhof, H.-P., M\u00fcller, P. (2002). A Combinatorial Approach to Protein Docking with Flexible Side Chains. Journal of Computational Biology<\/i>, 9<\/i>(4), 597-612. DOI<\/a><\/div>\n
Schmidt, B., Schr\u00f6der, H., Schimmler, M. (2002). A hybrid architecture for bioinformatics. FUTURE GENERATION COMPUTER SYSTEMS-THE INTERNATIONAL JOURNAL OF ESCIENCE<\/i>, 18<\/i>(6), 855-862. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Ganzert, S., Guttmann, J., Kersting, K., et al. (2002). Analysis of respiratory pressure-volume curves in intensive care medicine using symbolic machine learning. Artificial intelligence in medicine<\/i>, 26<\/i>(1\/2), Seiten: 69-86. Author\/Publisher URL<\/a><\/div>\n
Hildebrandt, A., Kohlbacher, O., Blossey, R., Lenhof, H.-P. (2002). Using nonlocal electrostatics for solvation free energy computations: ions and small molecules. arXiv preprint physics\/0212074<\/i>.<\/div>\n
Kramer, S., Frank, E., Helma, C. (2002). Fragment generation and support vector machines for inducing SARs. SAR and QSAR in environmental research<\/i>, 13<\/i>(5), Seiten: 509-523. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Book chapters<\/h3>\n\t
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De Raedt, L., and Kramer, S. (2001). The Levelwise Version Space Algorithm and Its Application to Molecular Fragment Finding. In B. Nebel (ed.), Proceedings of the Seventeenth International Joint Conference on Artificial Intelligence : Seattle, Washington, August 4 – 10, 2001 \/ IJCAI-01. Vol. 2<\/i> (pp. Seiten: 853-859). San Francisco, Calif.:Kaufmann.<\/div>\n
Kaindl, H., Kramer, S., and Hailing, M. (2001). An interactive guide through a defined modelling process. In A. Blandford (ed.), People and computers XV : interaction without frontiers ; joint proceedings of HCI 2001 and IHM 2001<\/i> (pp. Seiten: 107-123). London:Springer. Author\/Publisher URL<\/a><\/div>\n
Kramer, S. (2001). Demand-driven construction of structural features in ILP. In C. Rouveirol (ed.), Inductive logic programming : 11th international conference ; proceedings \/ ILP 2001, Strasbourg, France, September 9 – 11, 2001<\/i> (pp. Seiten: 132-141). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Kramer, S., and De Raedt, L. (2001). Feature construction with version spaces for biochemical applications. In B. Nebel (ed.), Proceedings of the Seventeenth International Joint Conference on Artificial Intelligence : Seattle, Washington, August 4 – 10, 2001 \/ IJCAI-01. Vol. 1<\/i> (pp. Seiten: 258-265). San Francisco, Calif.:Kaufmann.<\/div>\n
Kramer, S., and Widmer, G. (2001). Inducing classification and regression trees in first order logic. In S. D\u017eeroski (ed.), Relational data mining : with 69 tables<\/i> (pp. Seiten: 140-159). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n
Kramer, S., De Raedt, L., and Helma, C. (2001). Molecular feature mining in HIV data. In F. Provost (ed.), Proceedings of the Seventh ACM SIGKDD International Conference on Knowledge Discovery and Data Mining \/ KDD-2001 : August 26 – 29, 2001, San Francisco, CA, USA<\/i> (pp. Seiten: 136-143). New York, NY:ACM. Author\/Publisher URL<\/a><\/div>\n
Kramer, S., Lavra\u010d, N., and Flach, P. (2001). Propositionalization approaches to relational data mining. In S. D\u017eeroski (ed.), Relational data mining : with 69 tables<\/i> (pp. Seiten: 262-291). Berlin:Springer. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Conference Papers<\/h3>\n\t
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Althaus, E., Duchier, D., Koller, A., et al. (2001). An efficient algorithm for the configuration problem of dominance graphs. In S. R. Kosaraju (ed.), SODA<\/i> (pp. 815-824). ACM\/SIAM. Author\/Publisher URL<\/a><\/div>\n
Kohlbacher, O., Burchardt, A., Moll, A., et al. (2001). A NMR-spectra-based scoring function for protein docking. Proceedings of the fifth annual international conference on Computational biology<\/i>, 184-192.<\/div>\n
Schmidt, B., Schr\u00f6der, H., Schimmler, M. (2001). Protein Sequence Comparison on the Instruction Systolic Array. In V. E. Malyshkin (ed.), PaCT<\/i> (Vols. 2127, pp. 498-509). Springer. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Schr\u00f6der, H., Schimmler, M. (2001). Scanning Biosequence Databases on a Hybrid Parallel Architecture. In R. Sakellariou, J. A. Keane, J. R. Gurd, and L. Freeman (eds.), Euro-Par<\/i> (Vols. 2150, pp. 360-370). Springer. Author\/Publisher URL<\/a><\/div>\n
Wand, M., Fischer, M., Peter, I., et al. (2001). The randomized z-buffer algorithm: interactive rendering of highly complex scenes. In L. Pocock (ed.), SIGGRAPH<\/i> (pp. 361-370). ACM. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Althaus, E., Mehlhorn, K. (2001). Traveling Salesman-Based Curve Reconstruction in Polynomial Time. SIAM Journal on Computing<\/i>, 31<\/i>(1), 27-66. DOI<\/a><\/div>\n
Gottmann, E., Kramer, S., Pfahringer, B., Helma, C. (2001). Data quality in predictive toxicology : reproducibility of rodent carcinogenicity experiments. Environmental health perspectives<\/i>, 109<\/i>(5), Seiten: 509-514. Author\/Publisher URL<\/a><\/div>\n
Helma, C., King, R. D., Kramer, S., Srinivasan, A. (2001). The Predictive Toxicology Challenge 2000-2001. Bioinform.<\/i>, 17<\/i>, 107-108. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Kohlbacher, O., Burchardt, A., Moll, A., et al. (2001). Structure prediction of protein complexes by an NMR-based protein docking algorithm. Journal of biomolecular NMR<\/i>, 20<\/i>, 15-21.<\/div>\n
Kramer, S., Widmer, G., Pfahringer, B., De Groeve, M. (2001). Prediction of ordinal classes using regression trees. Fundamenta informaticae<\/i>, 47<\/i>(1\/2), Seiten: 1-13.<\/div>\n
Schmidt, B., Schr\u00f6der, H. (2001). A Hybrid Architecture for Multimedia Processors. Comput. Artif. Intell.<\/i>, 20<\/i>, 225-244.<\/div>\n
Schmidt, B., Schr\u00f6der, H., Schimmler, M. (2001). Tomographic Image Reconstruction on the Instruction Systolic Array. Comput. Artif. Intell.<\/i>, 20<\/i>, 27-42.<\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Conference Papers<\/h3>\n\t
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Althaus, E., and Mehlhorn, K. (2000). TSP-based curve reconstruction in polynomial time. In D. B. Shmoys (ed.), SODA<\/i> (pp. 686-695). ACM\/SIAM. Author\/Publisher URL<\/a><\/div>\n
Althaus, E., Kohlbacher, O., Lenhof, H.-P., and M\u00fcller, P. (2000). A combinatorial approach to protein docking with flexible side-chains. In R. Shamir, S. Miyano, S. Istrail, et al. (eds.), RECOMB<\/i> (pp. 15-24). ACM. Author\/Publisher URL<\/a><\/div>\n
F\u00fcrnkranz, J., Pfahringer, B., Kaindl, H., and Kramer, S. (2000). Learning to Use Operational Advice. In W. Horn (ed.), ECAI 2000, Proceedings of the 14th European Conference on Artificial Intelligence, Berlin, Germany, August 20-25, 2000<\/i> (pp. 291-295). IOS Press.<\/div>\n
Kramer, S., and Frank, E. (2000). Bottom-Up Propositionalization. In J. Cussens, A. M. Frisch (eds.), Inductive Logic Programming, 10th International Conference, ILP 2000, Work-in-progress reports, London, UK, July 2000, Proceedings<\/i> (Vols. 35). CEUR-WS.org. Author\/Publisher URL<\/a><\/div>\n
Kramer, S., Widmer, G., Pfahringer, B., and Groeve, M. de. (2000). Prediction of Ordinal Classes Using Regression Trees. In Z. W. Ras, S. Ohsuga (eds.), Foundations of Intelligent Systems, 12th International Symposium, ISMIS 2000, Charlotte, NC, USA, October 11-14, 2000, Proceedings<\/i> (Vols. 1932, pp. 426-434). Springer. DOI<\/a><\/div>\n
Schmidt, B. (2000). Design of a parallel accelerator for volume rendering. EURO-PAR 2000 PARALLEL PROCESSING, PROCEEDINGS<\/i>, 1900<\/i>, 1095-1104. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Sch\u00f6mer, E., Sellen, J., Teichmann, M., and Chee, Y. (2000). Smallest Enclosing Cylinders. Algorithmica<\/i>, 27<\/i>, 170-186. DOI<\/a><\/div>\n
Kramer, S. (2000). Thesis: Relational learning vs. propositionalization. AI Commun.<\/i>, 13<\/i>, 275-276. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., and Schimmler, M. (2000). KPROC – An Instruction Systolic Architecture for Parallel Prefix Applications. Scalable Comput. Pract. Exp.<\/i>, 3<\/i>.<\/div>\n<\/div>\t\n<\/div>\n\n

Theses\/Disssertations<\/h3>\n\t
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Althaus, E. (2000). Curve reconstruction and the traveling salesman problem<\/i>. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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Conference Papers<\/h3>\n\t
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Dzeroski, S., Blockeel, H., Kompare, B., et al. (1999). Experiments in Predicting Biodegradability. In S. Dzeroski and P. A. Flach (eds.), Inductive Logic Programming, 9th International Workshop, ILP-99, Bled, Slovenia, June 24-27, 1999, Proceedings<\/i> (Vols. 1634, pp. 80-91). Springer. DOI<\/a><\/div>\n
Kaindl, H., Kramer, S., Diallo, P. S. N. (1999). Semiautomatic Generation of Glossary Links: A Practical Solution. In J. Westbomke, U. K. Wiil, J. J. Leggett, et al. (eds.), HYPERTEXT \u201999, Proceedings of the 10th ACM Conference on Hypertext and Hypermedia: Returning to Our Diverse Roots, February 21-25, 1999, Darmstadt, Germany<\/i> (pp. 3-12). ACM. DOI<\/a><\/div>\n
Schmidt, B., Schimmler, M. (1999). A parallel accelerator architecture for multimedia video compression. EURO-PAR\u201999: PARALLEL PROCESSING<\/i>, 1685<\/i>, 950-960. Author\/Publisher URL<\/a><\/div>\n
Kaindl, H., Kramer, S., Afonso, L. M. (1998). Combining Structure Search and Content Search for the World-Wide Web. In R. M. Akscyn (ed.), HYPERTEXT \u201998. Proceedings of the Ninth ACM Conference on Hypertext and Hypermedia: Links, Objects, Time and Space – Structure in Hypermedia Systems, June 20-24, 1998, Pittsburgh, PA, USA<\/i> (pp. 217-224). ACM. DOI<\/a><\/div>\n
Kaindl, H., Kramer, S., Kacsich, R. (1998). A Case Study of Decomposing Functional Requirements Using Scenarios. 3rd International Conference on Requirements Engineering (ICRE \u201998), Putting Requirements Engineering to Practice, April 6-10, 1998, Colorado Springs, CO, USA, Proceedings<\/i>, 156-163. DOI<\/a><\/div>\n
Kramer, S., Pfahringer, B., Helma, C. (1998). Stochastic Propositionalization of Non-determinate Background Knowledge. In D. Page (ed.), Inductive Logic Programming, 8th International Workshop, ILP-98, Madison, Wisconsin, USA, July 22-24, 1998, Proceedings<\/i> (Vols. 1446, pp. 80-94). Springer. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Schimmler, M., Schr\u00f6der, H. (1998). Long operand arithmetic on instruction systolic computer architectures and its application in RSA cryptography. EURO-PAR \u201998 PARALLEL PROCESSING<\/i>, 1470<\/i>, 916-922. Author\/Publisher URL<\/a><\/div>\n
Kramer, S., Kaindl, H., Schlee, S. (1997). Can We Benefit from Metrics in KBS Development?. Proceedings of the Fifteenth International Joint Conference on Artificial Intelligence, IJCAI 97, Nagoya, Japan, August 23-29, 1997, 2 Volumes<\/i>, 662-667.<\/div>\n
Kramer, S., Pfahringer, B., Helma, C. (1997). Mining for Causes of Cancer: Machine Learning Experiments at Various Levels of Detail. In D. Heckerman, H. Mannila, D. Pregibon (eds.), Proceedings of the Third International Conference on Knowledge Discovery and Data Mining (KDD-97), Newport Beach, California, USA, August 14-17, 1997<\/i> (pp. 223-226). AAAI Press. Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Schimmler, M., Schr\u00f6der, H. (1997). Morphological Hough Transform on the Instruction Systolic Array. In C. Lengauer, M. Griebl, S. Gorlatch (eds.), Euro-Par<\/i> (Vols. 1300, pp. 798-806). Springer. Author\/Publisher URL<\/a><\/div>\n
Kramer, S. (1996). Structural Regression Trees. In W. J. Clancey, D. S. Weld (eds.), Proceedings of the Thirteenth National Conference on Artificial Intelligence and Eighth Innovative Applications of Artificial Intelligence Conference, AAAI 96, IAAI 96, Portland, Oregon, USA, August 4-8, 1996, Volume 1<\/i> (pp. 812-819). AAAI Press \/ The MIT Press. Author\/Publisher URL<\/a><\/div>\n
Kramer, S., Pfahringer, B. (1996). Efficient Search for Strong Partial Determinations. In E. Simoudis, J. Han, U. M. Fayyad (eds.), Proceedings of the Second International Conference on Knowledge Discovery and Data Mining (KDD-96), Portland, Oregon, USA<\/i> (pp. 371-374). AAAI Press. Author\/Publisher URL<\/a><\/div>\n
Sch\u00f6mer, E., Sellen, J., Teichmann, M., Yap, C. (1996). Smallest enclosing cylinders. Proceedings of the twelfth annual symposium on Computational geometry – SCG \u201996<\/i>, 413-414. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Follert, F., Sch\u00f6mer, E., Sellen, J., et al. (1995). Computing a largest empty anchored cylinder, and related problems. In P. S. Thiagarajan (ed.), Foundations of Software Technology and Theoretical Computer Science<\/i> (pp. 428-442). Berlin, Heidelberg:Springer Berlin Heidelberg. DOI<\/a><\/div>\n
Mahlmeister, U., Schmidt, B., Sommer, G. (1995). Preattentive Colour Features by Steerable Filters. In G. Sagerer, S. Posch, F. Kummert (eds.), DAGM-Symposium<\/i> (pp. 464-472). Springer. Author\/Publisher URL<\/a><\/div>\n
Pfahringer, B., Kramer, S. (1995). Compression-Based Evaluation of Partial Determinations. In U. M. Fayyad, R. Uthurusamy (eds.), Proceedings of the First International Conference on Knowledge Discovery and Data Mining (KDD-95), Montreal, Canada, August 20-21, 1995<\/i> (pp. 234-239). AAAI Press. Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n\n

Journal Articles<\/h3>\n\t
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Buck, M., and Sch\u00f6mer, E. (1998). Interactive rigid body manipulation with obstacle contacts. The Journal of Visualization and Computer Animation<\/i>, 9<\/i>, 243-257. 3.0.CO;2-5″ title=”Bibliographical information”>DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Althaus, E., and Mehlhorn, K. (1998). Maximum network flow with floating point arithmetic. Information Processing Letters<\/i>, 66<\/i>(3), 109-113. DOI<\/a><\/div>\n
Follert, F., Sch\u00f6mer, E., Sellen, J., et al. (1997). Computing a Largest Empty Anchored Cylinder, and Related Problems. International Journal of Computational Geometry & Applications<\/i>, 07<\/i>, 563-580. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n
Schmidt, B., Schimmler, M., Schr\u00f6der, H. (1997). Morphological hough transform on the instruction systolic array<\/i>. 798-806. DOI<\/a><\/div>\n
MULLER, M., HILDEBRANDT, A. (1993). NUCLEOTIDE-SEQUENCES OF THE 23S RIBOSOMAL-RNA GENES FROM BORDETELLA-PERTUSSIS, B-PARAPERTUSSIS, B-BRONCHISEPTICA AND B-AVIUM, AND THEIR IMPLICATIONS FOR PHYLOGENETIC ANALYSIS. NUCLEIC ACIDS RESEARCH<\/i>, 21<\/i>(14), 3320-3320. DOI<\/a> Author\/Publisher URL<\/a><\/div>\n<\/div>\t\n<\/div>\n<\/div>\n\n\n\n
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