Source: https://www.informatik.hu-berlin.de/de/forschung/gebiete/wbi/research/publications
Timestamp: 2019-04-19 06:30:20+00:00

Document:
Seva, J., Götze, J., Lamping, M., Rieke, D. T., Schäfer, R. and Leser, U. (2019).
Information Retrieval for Precision Oncology.
Witt, C., Bux, M., Gusew, W. and Leser, U. (2019).
Predictive Performance Modeling for Distributed Batch Processing using Black-Box Monitoring and Machine Learning.
Sprenger, S., Schaefer, P. and Leser, U. (2019).
BB-Tree: A practical and efficient main-memory index structure for multidimensional workloads.
Otto, R., Rössler, J.-N., Sers, C., Mamlouk, S. and Leser, U. (2018).
Robust in-silico identification of Cancer Cell Lines based on RNA and targeted DNA sequencing data.
Sprenger, S., Schäfer, P. and Leser, U. (2019).
BB-Tree: A main-memory index structure for multidimensional range queries (short paper).
Chondrogiannis, T., Bouros, P., Gamper, J., Leser, U. and Blumenthal, D. B. (2018).
Finding k-Dissimilar Paths with Minimum Collective Length.
Starlinger, J., Pallarz, S., Seva, J., Rieke, D., Sers, C., Keilholz, U. and Leser, U. (2018).
Variant Information Systems for Precision Oncology.
Witt, C., Wheating, S. and Leser, U. (2018).
LOS: Level Order Sampling for Task Graph Scheduling on Heterogeneous Resources.
Workshop on Workflows in Support of Large-Scale Science, Dallas, US.
Loster, M., Hegner, M., Naumann, F. and Leser, U. (2018).
Schäfer, P., and Leser, U. (2018).
Multivariate Time Series Classification with WEASEL+MUSE.
3rd ECML/PKDD Workshop on Advanced Analytics and Learning on Temporal Data, Dublin, Ireland.
Seva, J., Wackerbauer, M. and Leser, U. (2018).
Identifying Key Sentences for Precision Oncology Using Semi-Supervised Learning.
Sprenger, S., Schäfer, P. and Leser, U. (2018).
Multidimensional Range Queries on Modern Hardware.
Int. Conf. on Scientific and Statistical Database Management, Bozen, Italy.
Fier, F., Augsten, N., Bouros, P., Leser, U. and Freytag , J.-C. (2018).
Set Similarity Joins on MapReduce: An Experimental Survey.
Int. Conf. on Very Large Databases, Rio de Janeiro, Brazil.
Wandelt, S., Sun, X. and Leser, U. (2018).
Column-wise compression of open relational data.
Roller, R., Kittner, M., Weissenborn, D. and Leser, U. (2018).
Cross-lingual Candidate Search for Biomedical Concept Normalization.
Int. Workshop on Multilingual Biomedical Text Processing, Tokyo, Japan.
Krause, T., Leser, U., Luedeling, A. and Druskat, S. (2018).
Designing a Re-Usable and Embeddable Corpus Search Library.
Workshop on the Challenges in the Management of Large Corpora, Miyazaki, Japan.
Sprenger, S., Zeuch, S. and Leser, U. (2018).
Exploiting automatic vectorization to employ SPMD on SIMD registers.
Joint Workshop of HardBD and Active, Paris, France.
Becker S, Szyska M, Mensen A, Hocke A, Hellwig K, Otto R, Olfe L, Vuong L, Tietze-Bürger C, Dörner T, Dörken B, Scheibenbogen C, Schröder J, Arnold R and Na I. (2017).
Journal of Allergy and Clinical Immunology, doi: 10.1016/j.jaci.2017.12.983.
Schäfer, P., Pflugmacher, D., Hostert, P. and Leser, U. (2018).
Classifying land cover from satellite images using time series analytics.
2nd Int. Workshop on Data Analytics Solutions for Real-Life Applications, Vienna, Austria.
Schäfer, P. and Leser, U. (2017).
Fast and Accurate Time Series Classification with WEASEL.
Brandt, J., Reisig, W. and Leser, U. (2017).
Computation Semantics of the Functional Scientific Workflow Language Cuneiform.
Journal of Functional Programming (accepted).
Ševa, J., Kittner, M., Roller, R. and Leser, U. (2017).
Multi-lingual ICD-10 coding using a hybrid rule-based and supervised classification approach at CLEF eHealth 2017.
Kougka, G., Gounaris, A. and Leser, U. (2017).
Modeling Data Flow Execution in a Parallel Environment.
Klinghammer, K., Otto, R., Raguse, J.-D., Albers, A. E., Tinhofer, I., Fichtner, I., Leser, U., Keilholz, U. and Hoffmann, J. (2017).
Basal subtype is predictive for response to cetuximab treatment in patient derived xenografts of squamous cell head and neck cancer.
Int. Journal of Cancer, 141(6).
Kittner, M., Bajwa, B., Rieke, D., Lamping, M., Starlinger, J. and Leser, U. (2017).
Design of an Information Extraction Pipeline for German Clinical Texts.
Workshop on Extraction and Processing of Rich Semantics from Medical Texts.
Habibi, M., Weber, L., Neves, M., Wiegandt, D. L. and Leser, U. (2017).
Deep Learning with Word Embeddings improves Biomedical Named Entity Recognition.
Bioinformatics, 33(14); special issue of ISMB/ECCB, Prague, Czech.
Rheinländer, A., Leser, U. and Graefe, G. (2017).
Optimization of Complex Data Flows with User-Defined Functions.
Sänger, M., Leser, U. and Klinger, R. (2017).
Fine-grained Opinion Mining from Mobile App Reviews with Word Embedding Features.
Int. Conf. on Natural Language & Information Systems, Liege, Belgium.
Trescher, S., Münchmeyer, Y. and Leser, U. (2017).
Estimating Genome-Wide Regulatory Activity from Multi-Omics Data Sets using Mathematical Optimization.
Otto, R., Sers, C. and Leser, U. (2017).
Robust In-Silico identification of Cancer Cell Lines based on Next Generation Sequencing.
Mamlouk, S., Childs, L. H., Aust, D., Heim, D., Melching, F., Oliveira, C., Wol, T., Durek, P., Schumacher, D., Bläker, H., von Winterfeld, M Gastl, B, Möhr, K, Menne, A, Zeugner, S, Redmer, T, Lenze, D, Tierling, S, Möbs, M, Weichert, W, Folprecht, G, Blanc, E, Beule, D, Schäfer, R, Morkel, M Klauschen, F, Leser, U, Sers, C (2017).
Bux, M., Brandt, J., Witt, C., Dowling, J. and Leser, U. (2017).
Int. Conf. on Extending Database Technology, Venice, Italy.
Chondrogiannis, T., Bouros, P., Gamper, J. and Leser, U. (2017).
Exact and Approximate Algorithms for Finding k-Shortest Paths with Limited Overlap.
Int. Conf. on Extending Database Technologies (EDBT), Venice, Italy.
Krause, T., Leser, U. and Lüdeling, A. (2017).
graphANNIS: A Fast Query Engine for Deeply Annotated Linguistic Corpora.
Language Technology and Computational Linguistics 31.
Scalability of Univariate Time Series Classifiers.
Habibi, M. Wiegandt, D. L., Schmedding, F. and Leser, U. (2016).
Recognizing Chemicals in Patents - A Comparative Analysis.
Starlinger, J., Kittner, M., Blankenstein, O. and Leser, U. (2016).
Sprenger, S., Zeuch, S. and Leser, U. (2016).
ADMS-IMDM workshops, New Delhi, India.
Wiegandt, D., Starlinger, J. and Leser, U. (2016).
Habibi, M., Wiegandt, D. L., Schmedding, F. and Leser, U. (2016).
Semantic Mining in Biomedicine, Potsdam, Germany.
Heinemann, F., Huber, T., Meisel, C., Bundschus, M. and Leser, U. (2016).
Reflection of successful anti-cancer drug development processes in the literature.
Drug Discovery Today 21(11): 1740–1744.
Lichtblau, Y., Zimmermann, K., Haldemann, B., Lenze, D., Hummel, M. and Leser, U. (2016).
Comparative assessment of differential network analysis methods.
Kunkel, A., Rheinländer, A., Schiefer, C., Helmer, S., Bouros, P., and Leser, U. (2016).
PIEJoin: Towards Parallel Set Containment Joins.
Childs, L., Mamlouk, S., Brandt, J., Sers, C. and Leser, U. (2016).
SoFIA: A Data Integration Framework for Annotating High-Throughput Data Sets.
Thomas, P., J. Hakenberg, T. Rocktäschel, Y. Lichtblau and U. Leser (2016).
SETH detects and normalizes genetic variants in text.
Rheinländer, A., Lehmann, M., Kunkel, A., Meier, J. and Leser, U. (2016).
Potential and Pitfalls of Domain-Specific Information Extraction at Web Scale.
Jargosch, M., S. Kroeger, E. Gralinska, U. Klotz, Z. Fang, W. Chen, U. Leser, J. Selbig, D. Groth and R. Baumgrass (2016).
Data integration for identification of important transcription of STAT6-mediated cell fate decisions.
Genetics and Molecular Research, 15(2).
Sänger, M., U. Leser, S. Kemmerer, P. Adolphs and R. Klinger (2016).
Gohlke, B.-O., J. Nickel, R. Otto, M. Dunkel and R. Preissner (2016).
CancerResource—updated database of cancer-relevant proteins, mutations and interacting drugs.
Hakenberg, J., W.-Y. Cheng, P. Thomas, Y.-C. Wang, A. V. Uzilov and R. Chen (2016).
Sips, M., Witt, C., Rawald, T. and Marwan, N. (2016).
Torwards Visual Analytics for the Exploration of Large Sets of Time Series.
Recurrence Plots and Their Quantifications: Expanding Horizons (pp. 3-17). Springer International Publishing.
Wandelt, S. and U. Leser (2015).
Sequence factorization with multiple references.
P. Köthur, C. Witt, M. Sips, N. Marwan, S. Schinkel, and D. Dransch (2015).
Visual Analytics for Correlation-Based Comparison of Time Series Ensembles.
Chondrogiannis, T., P. Bouros, J. Gamper and U. Leser (2015).
Alternative Routing: k-Shortest Paths with Limited Overlap.
Bessani, A., J. Brandt, M. Bux, V. Cogo, L. Dimitrova, J. Dowling, A. Gholami, K. Hakimzadeh, M. Hummel, M. Ismail, E. Laure, U. Leser, J.-E. Litton, R. Martinez, S. Niazi, J. Reichel and K. Zimmermann (2015).
BiobankCloud: a Platform for the Secure Sorage, Sharing, and Processing of Large Biomedical Data Sets.
1st Int. Workshop on Data Management and Analytics for Medicine and Healthcare, Hawaii, US..
Taliun, D., J. Gamper, U. Leser and C. Pattaro (2015).
Transactions on Computational Biology and Bioinformatics, 13(2):315-25.
Starlinger, J., S. Cohen-Boulakia, S. Khannac, S. B. Davidson and U. Leser (2015).
Future Generation Computer Systems, 56, pp 584–594.
Alves, F., V. Cogo, S. Wandelt, U. Leser and A. N. Bessani (2015).
On-Demand Indexing for Referential Compression of DNA Sequences.
Bux, M., J. Brandt, C. Lipka, K. Hakimzadeh, J. Dowling and U. Leser (2015).
SAASFEE: Scalable Scientific Workflow Execution Engine.
Rheinländer, A., Heise, A., Hueske, F., Leser, U., and Naumann, F. (2015).
Lehmann, R., Childs, L., Thomas, P., Abreu, M., Fuhr, L., Herzel, H., Leser, U. and Relógio, A. (2015).
Assembly of a comprehensive regulatory network for the mammalian circadian clock: a bioinformatics approach.
Zimmermann, K., Jentsch, M., Rasche, A., Hummel, M. and Leser, U. (2015).
Rawald, T., Sips, M., Marwan, N. and Leser, U. (2015).
Int. Workshop on Data (Co-)Processing on Heterogeneous Hardware (DAPHNE).
Brandt, J., Bux, M. and Leser, U. (2015).
EDBT Workshop Beyond Map&Reduce, Bruessels, Belgium.
Thomas, P., Durek, P., Solt, I., Klinger, B., Witzel, F., Schulthess, P., Mayer, Y., Tikk, D., Blüthgen, N. and Leser, U. (2015).
Computer-assisted curation of a human regulatory core network from the biological literature.
Neves, M. and U. Leser (2015).
Bégay, V., Smink, J. J., Loddenkemper, C., Zimmermann, K., Rudolph, C., Scheller, M., Steinemann, D., Leser, U., Schlegelberger, B., Stein, H., et al. (2014).
Journal of Molecular Medicine, Nov 2014.
Wandelt, S. and U. Leser (2014).
Wandelt, S. and Sun, X. (2014).
Efficient Compression of 4D-Trajectory Data in Air Traffic Management.
IEEE Transactions on Intelligent Transportation Systems, 16(2).
Bux, M. and Leser, U. (2014).
DynamicCloudSim: Simulating Heterogeneity in Computational Clouds.
Future Generation Computer Systems 46:85-99.
Starlinger, J., Cohen-Boulakia, S., Khanna, S., Davidson, S. B. and Leser, U. (2014).
SEE: structured representation of scientific evidence in the biomedical domain using Semantic Web techniques.
Journal of Biomedical Semantics, 5(Suppl 1):S1.
Similarity Search for Scientific Workflows.
The Stratosphere Platform for Big Data Analytics.
Int. Conf. on Algorithms for Computational Biology, Barcelona, Spain.
Ras – mediated deregulation of the circadian clock in cancer.
A Study in Domain-Independent Information Extraction for Disaster Management.
Workshop on Disaster Management and Principled Large-scale information Extraction, Reijkjavik, Island.
State-of-the-art in String Similarity Search and Join.
Extracting and Aggregating Temporal Events from Text.
4th Temporal Web Analytics Workshop, Seoul, Korea.
Biocreative IV. Bethesda, MD, USA.
Crosstalk between Wnt/β-catenin and Irf8 in leukemia progression and drug resistance.
Journal of Experimental Medicine, 210(11):2239-2256 .
Transactions on Computational Biology and Bioinformatics 10(5): 1275-1288.
International Conference on Advances in Geographic Information Systems (SIGSPATIAL'13), Orlando, Florida, USA.
Journal of Biomedical Semantics, 4:25.
QGramProjector: Q-gram projection for indexing highly-similar strings.
Advances in Databases and Information Systems, Genoa, Italy.
BioLINK Special Interest Group, in conjunction with ISBM/ECCB 2013 Conference, Berlin, Germany.
Int. Workshop on Scalable Workflow Enactment Engines and Technologies (SWEET'13), in conjunction with ACM SIGMOD Conference, New York, USA.
OmixAnalyzer - A Web-Based System for Management and Analysis of High-Throughput Omics Data Sets.
Int. Conf. on Data Integration for the Life Sciences (DILS).
Rocktäschel, T., Huber, T., Weidlich, M. and Leser, U. (2013).
WBI-NER: The impact of domain-specific features on the performance of identifying and classifying mentions of drugs.
Thomas, P., Neves, M., Rocktäschel, T. and Leser, U. (2013).
WBI-DDI: Drug-Drug Interaction Extraction using Majority Voting.
Neves, M., Damaschun, A., Mah, N., Lekschas, F., Seltmann, S., Stachelscheid, H., Fontaine, J.-F., Kurtz, A. and Leser, U. (2013).
Preliminary evaluation of the CellFinder literature curation pipeline for gene expression in kidney cells and anatomical parts Database (Oxford) Vol. 2013, Article ID bat020.
Tikk, D., Solt, I., Thomas, P. and Leser, U. (2013).
A Detailed Error Analysis of 13 Kernel Methods for Protein-Protein Interaction Extraction. Supp Material: Instance based difficulty levels BMC Bioinformatics vol. 14.
Leich, M., Adamek, J., Schubotz, M., Heise, A., Rheinländer, A. and Markl , V. (2013).
Applying Stratosphere for Big Data Analytics 15. GI-Fachtagung Datenbanksysteme für Business, Technologie und Web (BTW), March 11 - 15, 2013, Magdeburg, Germany.
Thomas, P., Starlinger, J. and Leser, U. (2013).
Experiences from Developing the Domain-Specific Entity Search Engine GeneView BTW, Magdeburg, Germany.
Pirk, H., Funke, F., Grund, M., Neumann, T., Leser, U., Manegold, S., Kemper, A. and Kersten, M.
CPU and Cache Efficient Management of Memory-Resident Databases.
SOFA: An Extensible Logical Optimizer for UDF-heavy Dataflows.
Parallelization in Scientific Workflow Management Systems.
Neves, M. and Leser, U.
A Survey on Annotation Tools for the Biomedical Literature. Briefings in Bioinformatics, 14(4).
Wandelt, S. and Leser, U.
Adaptive efficient compression of genomes.
String Searching in Referentially Compressed Genomes.
Int. Conf. on Knowledge Discovery and Information Retrieval, Barcelona, Spain.
Leser, U. and Liebermeister, W.
Knowledge Management for Systems Biology.
In Dubitzky, W., Wolkenhauer, O., Cho, K.-H. and Yokota, H. (ed). Book "Encyclopedia of Systems Biology".
Using Ontologies to Study Cell Transitions.
Int. Workshop on Ontologies in Biomedicine and Life Sciences, Dresden, Germany.
Joosten, M., Seitz, V., Zimmermann, K., Sommerfeld, A., Berg, E., Lenze, D., Leser, U., Stein, H. and Hummel, M.
Int. Conf. on Information and Knowledge Management, Hawaii.
Wandelt, S., Rheinländer, A., Bux, M., Thalheim, L., Haldemann, B. and Leser, U.
Heise, A., Rheinländer, A., Leich, M., Naumann, F., and Leser, U.
Meteor/Sopremo: An Extensible Query Language and Operator Model.
Int. Workshop on End-to-end Management of Big Data, in conjunction with VLDB, Istanbul, Turkey, 2012.
Thomas, P., Starlinger, J., Vowinkel, A., Arzt, S. and Leser, U.
GeneView: A comprehensive semantic search engine for PubMed.
Nucl. Acids Res. 40 (W1): W585-W591, 2012.
Hueske, F., Peters, M., Sax, M.J., Rheinländer, A., Bergmann, R., Krettek, A., and Tzoumas, K.
Opening the Black Boxes in Dataflow Optimization.
38th Int. Conf. on Very Large Data Bases (VLDB), Istanbul, Turkey, 2012.
Koschmieder, A. and Leser, U.
International Conference on Scientific and Statistical Database Management (SSDBM) 2012.
Boelling, C., Dumontier, M., Weidlich, M. and Holzhütter, H.
International Conference on Biomedical Ontology.
Rocktäschel, T., Weidlich, M. and Leser, U..
Trissl, S., Hussels, P. and Leser, U.
Starlinger, J., Cohen-Boulakia, S. and Leser, U.
Fenz, D., Lange, D., Rheinländer, A., Naumann, F. and Leser, U.
Thomas, P., Bobić, T., Leser, U., Hofmann-Apitius, M. and Klinger, R.
Neves, M., Damaschun, A., Kurtz, A. and Leser, U.
Annotating and evaluating text for stem cell research.
Bobic, T., Klinger, R., Thomas, P., and Hofmann-Apitius, M.
Improving Distantly Supervised Extraction of Drug-Drug and Protein-Protein Interactions.
Müller, H., Freytag, J.-C. and Leser, U.
Improving Data Quality by Source Analysis.
Bauckmann, J., Abedjan, Z., Leser, U., Müller, H. and Naumann, F.
Covering or Complete? Discovering Conditional Inclusion Dependencies.
Technical Report 62, Hasso-Plattner-Institut Potsdam.
Regular Path Queries on Large Graphs.
Technical Report No 240, Department of Computer Science, Humboldt-Universität zu Berlin.
Döhling, L. and Leser, U. (2011).
In Proceedings of Terra Cognita 2011 Workshop, Bonn, Germany.
Thomas, P., Solt, I., Klinger, R. and Leser, U. (2011).
Hakenberg, J., Gerner, M., Haeussler, M., Solt, I., Plake, C., Schroeder, M., Gonzalez, G., Nenadic, G. and Bergman, C. (2011).
Rheinländer, A. and Leser, U. (2011).
2nd International Workshop on High Performance Bioinformatics and Biomedicine (HiBB), Bordeaux, France.
Thomas, P., Neves, M. L., Solt, I., Tikk, D. and Leser, U. (2011).
Cohen-Boulakia, S. and Leser, U. (2011).
Arighi, C.N., Roberts, P., Agarwal, S., Bhattacharya, S., Cesareni, G., Chatr-aryamontri, A., Clematide, S., Gaudet, P., Giglio, M.G., Harrow, I., Huala, E., Krallinger, M., Leser, U., Li, D., Liu, F., Lu, Z., Maltais, L., Okazaki, N., Perfetto, L., Rinaldi, F., Sætre, R., Salgado, D., Srinivasan, P., Thomas, P.E., Toldo, L., Hirschman L., and Wu, C.H (2011).
Arzt, S., Starlinger, J., Arnold, O., Kröger, S., Jaeger, S., and Leser, U. (2011).
GI-Jahrestagung 2011, Workshop "Daten In den Lebenswissenschaften".
Groth, P., Leser, U. and Weiss, B. (2011).
Phenotype Mining for Functional Genomics and Gene Discovery.
In Yu, B. and Hinchcliffe, M. (ed). Book "In Silico Tools for Gene Discovery", Springer.
Thomas, P., Klinger, R., Furlong, L., Hofmann-Apitius, M. and Friedrich, C. (2011).
BMC Bioinformatics 2011, 12(Suppl 4):S4.
Thomas, P., Pietschmann, S., Solt, I., Tikk, D. and Leser, U. (2011).
Seitz, V., Thomas, P., Zimmermann, K., Paul, U., Ehlers, A., Joosten, M., Dimitrova, L., Lenze, D., Sommerfeld, A., Oker, E., Leser, U., Stein, H., and Hummel, M. (2011).
Koschmieder, A., Zimmermann, K., Trißl, S., Stoltmann, T. and Leser, U.
Briefings in Bioinformatics 2012 13: 46-60.
Jaeger, S., Sers, C. and Leser, U. (2011).
Int. Conf. on Data Engineering, Hannover, Germany.
Starlinger, J., Schmeck, B. and Leser, U.
CIKM 2011, Workshop on Web Science and Information Exchange in the Medical Web.
Döhling, L., Woith, H., Fahland, D. and Leser, U.
GI-Jahrestagung 2011, Workshop "Workshop zur IT-Unterstützung von Rettungskräften".
Gille C, Bölling C, Hoppe A, Bulik S, Hoffmann S, Hübner K, Karlstädt A, Ganeshan R, König M, Rother K, Weidlich M, Behre J, Holzhütter HG.
Castillo, R., Rothe, C. and Leser, U.
6th Int. WS on Scalable Semantic Web Knowledge Bases, Shanghai, China.
Ngyuen, L. Q., Tikk, D. and Leser, U.
Jaeger, S., Ertaylan, G., van Dijk, D., Leser, U. and Sloot, P. M.
PLoS ONE 5(10): e13139, 2010.
RDFMatView: Indexing RDF Data for SPARQL Queries.
International Semantic Web Conference 2010, Doctoral Consortium, Shanghai, China.
Rheinländer, A., and Leser, U.
Fast Similarity Search and Similarity Join in Oracle DB.
In Proceedings of DOAG'10, Nürnberg, 2010.
Journal of the American Medical Informatics Association 2010;17:540-544.
Workshop on Querying Graph Structured Data, Novi Sad, Serbia.
Kabisch, T., Dragut, E., Yu, C. and Leser, U.
Int. Conf. on Very Large Databases, Singapore.
Groth, P., Kalev, I., Kirov, I., Traikov, B., Leser, U. and Weiss, B.
Senger, C., Seidling, H. M., Quinzler, R., Leser, U. and Haefeli, W. E.
Tikk, D., Thomas, P., Palaga, P., Hakenberg, J. and Leser, U.
Rheinländer, A., Knobloch, M., Hochmuth, N. and Leser, U.
Brauer, F., Huber, M., Hackenbroich, G., Leser, U., Naumann, F. and Barczynski, W.
Hakenberg, J., Solt, I., Tikk, D., Nguyen, V. H., Tari, L., Nguyen, Q. L., Baral, C. and Leser, U.
Int. Journal of Computational Intelligence 7(4): 665-680.
Freytag, J.-C., Kao, O., Leser, U., Markl, V., and Naumann, F.
Solt, I., Gerner, M., Thomas, P., Nenadic, G., Bergman, C. M., Leser, U. and Hakenberg, J.
Proceedings of BioCreative III, Bethesda, USA, 2010. pp 137-142.
Thomas, P., Starlinger, J., Jacob, C., Solt, I., Hakenberg, J. and Leser, U.
Lakes, T., Leser, U. and Senf, C.
An urban health risk analysis for Berlin: exploration and integration of spatio-temporal information on the urban environment.
Analysis of Affymetrix Exon Arrays.
Bauckmann, J., Leser, U. and Naumann, F.
Dragut E, Kabisch T, Leser U, Yu C.
The Third i2b2 Workshop on Challenges in Natural Language Processing for Clinical Data, 11/2009, San Francisco, CA, USA.
Rostin A, Albrecht O, Bauckmann J, Naumann F, Leser U.
Third prize in the international Service Cup 2009 contest.
Extending Database Technology (EDBT), St. Petersburg, Russia.
Traitement Automatique des Langues, Special Issue on Platforms for Natural Language Processing.
Hakenberg, J., Plake, C. and Leser, U.
Schiemann, T., Leser, U. and Hakenberg, J.
In Prince, V. and Roche, M. (eds) Information Retrieval in Biomedicine: Natural Language Processing for Knowledge Integration. IGI Global.
Journal of the American Medical Informatics Association, 2009;16:580-584.
Mining relations from the biomedical literature.
Knowledge management and discovery for genotype/phenotype data.
Hakenberg, J., Plake, C., Royer, L., Strobelt, H., Leser U., and Schroeder. M.
Genome Biology, 2008;9 Suppl 2:S14 (2008).
Groth, P., Weiss, B. and Leser, U.
BioSapiens Workshop on Automated Function Prediction, at ISMB 2008.
Jaeger, S., Gaudan, S., Leser, U. and Rebholz-Schuhmann, D.
Workshop on Data Integration for the Life Sciences (DILS), Evry, France.
Quilitz, B. and Leser, U.
European semantic Web Conference (ESWC), Teneriffa, Spain (2008).
Michael Ashburner, Ulf Leser, Dietrich Rebholz-Schuhmann, Eds. (2008). Proceedings of the Dagstuhl Workshop on "Ontologies and Text Mining for Life Sciences: Current Status and Future Perspectives". Available from the Dagstuhl DROPS server.
Jens Dittrich, Ulf Leser, Betram Ludaescher, Dave Maier, Louiqa Raschid, Eds. (2008). Proceedings Workshop on Information Integration Methods, Architectures, and Systems" (IIMAS), Cancun, Mexico.
Jaeger, S. and Leser, U.
German Conference on Bioinformatics (GCB), Springer LNI, pp 145-162, Potsdam, Germany (2007).
XML Tage, Berlin, Germany, (2007).
PhD Workshop in conjunction with VLDB 2007, Vienna, Austria (2007).
Hakenberg, J., Schröder, M. and Leser, U.
Proc 2nd BioCreative Challenge Evaluation Workshop. Madrid, Spain, April 23-25, pages 213–215.
1st PhD Workshop on Innovative Database Research (IDAR) in conjunction with ACM SIGMOD Conference, Beijing, China, 2007.
Fahland, D., Gläßer, T. M., Quilitz, B., Weißleder, S. and Leser, U.
Heese, R., Leser, U., Quilitz, B. and Rothe, C.
Implications for molecular mechanisms of glycoprotein hormone receptors using a new Sequence-Structure-Function Analysis resource.
Ali Baba: Accessing PubMed using graphs.
Ali Baba: PubMed as a graph.
Collecting a Large Corpus from all of Medline.
Adapters, shims, and glue - service interoperability for in silico experiments.
A structural keystone for drug design.
Implementing a Linguistic Query Language for Historic Texts.
International Workshop on Query Languages and Query Processing, Springer-Verlag, München (2006).
Proceedings of the Third International Workshop, Hinxton, July 2006.
Proceedings of the International Workshop KDLL 2006 in conjunction with PAKDD 2006, Singapore, April 2006.
Ali Baba - Visualizing biological networks from PubMed query results.
Poster at Data Integration in the Life Sciences (DILS), Hinxton, UK (2006).
On the Distance of Databases.
Das Interdisziplinäre Zentrum für Sprachliche Bedeutung .
What Makes a Gene Name? Named Entity Recognition in the Biomedical Literature.
Erkennen und Bereinigen von Datenfehlern in naturwissenschaftlichen Daten.
Datenbank Spektrum, Vol. 15, pp. 26-35 (2005).
A Query Language for Biological Networks.
3rd European Conference on Computational Biology, Madrid, Spain (2005).
Querying ontologies in relational database systems.
2nd Workshop on Data Integration in the Life Sciences (DILS05), San Diago, USA (2005).
Integrating and Warehousing Liver Gene Expression Data and Related Biomedical Resources in GEDAW.
GandrKB: Ontological Microarray Annotation and Visualization.
LLL'05 Challenge: Genic Interaction Extraction with Alignments and Finite State Automata.
Systematic Feature Evaluation for Gene Name Recognition.
Tuning Text Classification for Hereditary Diseases with Section Weighting.
Columba: An Integrated Database of Proteins, Structures, and Annotations.
How well are protein structures annotated in secondary databases?.
Learning Patterns for Information Extraction from Free Text.
Optimizing Syntax Patterns for Discovering Protein-Protein Interactions.
Anke Lüdeling, Thorwald Poschenrieder und Lukas Faulstich.
DeutschDiachronDigital - Ein diachrones Korpus des Deutschen.
Text Mining: Automatische Analyse biomedizinischer Texte .
GenomXPress, 4.05, pp. 20-22 (2005).
Ramakrishnan, R., Agrawal, R., Freytag, J.-C., Bollinger, T., Clifton, C. W., Dzeroski, S., Hipp, J., Keim, D., Kramer, S., Kriegel, H.-P., Leser, U., et al.
Data Mining: The Next Generation. Report from a Dagstuhl Perspectives Workshop..
Recognition and Extraction of Entities related to Enzyme Kinetics.
Poster at Biotext - a biomedical text mining workshop, London, UK, 9 November 2005.
Finding Kinetic Data Using Text Mining.
Poster at 5th Int Workshop on Bioinformatics and Systems Biology, Berlin, Germany, 25 August 2005.
Anfragen in Ontologien in relationalen Datenbanken (German).
17. GI-Workshop über 'Grundlagen von Datenbanken', Wörlitz, Germany (2005).
Studierendenprogramm der 11. GI-Fachtagung für Datenbanksysteme in Business, Technologie und Web (BTW 2005), Karlsruhe.
Storing and querying historical texts in a relational database.
Implementing Linguistic Query Languages Using LoToS.
Interview Prof. Leser mit der Berliner Morgenpost vom 16.7.2005: " Strategien gegen Studienabbrecher und Langzeitstudenten"
Interview in der Saarbrücker Zeitung zu Dagstuhl Seminare: "Ein Mekka für Forscher"
Journal on Information Systems, 29(7):583-615 (2004).
Int Conf Systems Biology (ICSB), October 2004, Heidelberg, Germany.
MAPPP - MHC-I Antigenic Peptide Processing Prediction.

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