Ulf Leser

Domonkos Tikk, Illés Solt, Philippe E. Thomas, Ulf Leser: A detailed error analysis of 13 kernel methods for protein-protein interaction extraction. BMC Bioinformatics 14: 12 (2013)

Philippe E. Thomas, Johannes Starlinger, Ulf Leser: Experiences from Developing the Domain-Specific Entity Search Engine GeneView. BTW 2013: 225-239

Marc Bux, Ulf Leser: Parallelization in Scientific Workflow Management Systems. CoRR abs/1303.7195 (2013)

Sebastian Wandelt, Ulf Leser: Adaptive efficient compression of genomes. Algorithms for Molecular Biology 7: 30 (2012)

André Koschmieder, Karin Zimmermann, Silke Trißl, Thomas Stoltmann, Ulf Leser: Tools for managing and analyzing microarray data. Briefings in Bioinformatics 13(1): 46-60 (2012)

Tim Rocktäschel, Michael Weidlich, Ulf Leser: ChemSpot: a hybrid system for chemical named entity recognition. Bioinformatics 28(12): 1633-1640 (2012)

Sebastian Wandelt, Astrid Rheinländer, Marc Bux, Lisa Thalheim, Berit Haldemann, Ulf Leser: Data Management Challenges in Next Generation Sequencing. Datenbank-Spektrum 12(3): 161-171 (2012)

Heiko Müller, Johann Christoph Freytag, Ulf Leser: Improving data quality by source analysis. J. Data and Information Quality 2(4): 15 (2012)

Philippe E. Thomas, Johannes Starlinger, Alexander Vowinkel, Sebastian Arzt, Ulf Leser: GeneView: a comprehensive semantic search engine for PubMed. Nucleic Acids Research 40(Web-Server-Issue): 585-591 (2012)

Jana Bauckmann, Ziawasch Abedjan, Ulf Leser, Heiko Müller, Felix Naumann: Discovering conditional inclusion dependencies. CIKM 2012: 2094-2098

Silke Trißl, Philipp Hussels, Ulf Leser: InterOnto - Ranking Inter-Ontology Links. DILS 2012: 5-20

Sebastian Wandelt, Ulf Leser: String Searching in Referentially Compressed Genomes. KDIR 2012: 95-102

André Koschmieder, Ulf Leser: Regular Path Queries on Large Graphs. SSDBM 2012: 177-194

Dandy Fenz, Dustin Lange, Astrid Rheinländer, Felix Naumann, Ulf Leser: Efficient Similarity Search in Very Large String Sets. SSDBM 2012: 262-279

Johannes Starlinger, Sarah Cohen Boulakia, Ulf Leser: (Re)Use in Public Scientific Workflow Repositories. SSDBM 2012: 361-378

Cecilia N. Arighi, Phoebe M. Roberts, Shashank Agarwal, Sanmitra Bhattacharya, Gianni Cesareni, Andrew Chatr-aryamontri, Simon Clematide, Pascale Gaudet, Michelle G. Giglio, Ian Harrow, Eva Huala, Martin Krallinger, Ulf Leser, Donghui Li, Feifan Liu, Zhiyong Lu, Lois J. Maltais, Naoaki Okazaki, Livia Perfetto, Fabio Rinaldi, Rune Sætre, David Salgado, Padmini Srinivasan, Philippe E. Thomas, Luca Toldo, Lynette Hirschman, Cathy H. Wu: BioCreative III interactive task: an overview. BMC Bioinformatics 12(S-8): S4 (2011)

Jörg Hakenberg, Illés Solt, Domonkos Tikk, Nguyen Ha Vo, Luis Tari, Quang Long Nguyen, Chitta Baral, Ulf Leser: Molecular Event Extraction from Link Grammar Parse Trees in the BioNLP'09 Shared Task. Computational Intelligence 27(4): 665-680 (2011)

Sarah Cohen Boulakia, Ulf Leser: Search, adapt, and reuse: the future of scientific workflows. SIGMOD Record 40(2): 6-16 (2011)

Astrid Rheinländer, Ulf Leser: Scalable Sequence Similarity Search and Join in Main Memory on Multi-cores. Euro-Par Workshops (2) 2011: 13-22

Sarah Cohen Boulakia, Ulf Leser: Next generation data integration for Life Sciences. ICDE 2011: 1366-1369

Philip Groth, Ivan Kalev, Ivaylo Kirov, Borislav Traikov, Ulf Leser, Bertram Weiss: Phenoclustering: online mining of cross-species phenotypes. Bioinformatics 26(15): 1924-1925 (2010)

Quang Long Nguyen, Domonkos Tikk, Ulf Leser: Simple tricks for improving pattern-based information extraction from the biomedical literature. J. Biomedical Semantics 1: 9 (2010)

Illés Solt, Domonkos Tikk, Ulf Leser: Species identification for gene name normalization. BMC Bioinformatics 11(S-5): P5 (2010)

Domonkos Tikk, Peter Palaga, Ulf Leser: A fast and effective dependency graph kernel for PPI relation extraction. BMC Bioinformatics 11(S-5): P8 (2010)

Domonkos Tikk, Philippe E. Thomas, Peter Palaga, Jörg Hakenberg, Ulf Leser: A Comprehensive Benchmark of Kernel Methods to Extract Protein-Protein Interactions from Literature. PLoS Computational Biology 6(7) (2010)

Thomas Kabisch, Eduard Constantin Dragut, Clement T. Yu, Ulf Leser: Deep Web Integration with VisQI. PVLDB 3(2): 1613-1616 (2010)

Silke Trißl, Ulf Leser: Estimating Result Size and Execution Times for Graph Queries. ADBIS (Local Proceedings) 2010: 11-20

Roger Castillo, Ulf Leser: Selecting Materialized Views for RDF Data. ICWE Workshops 2010: 126-137

Astrid Rheinländer, Martin Knobloch, Nicky Hochmuth, Ulf Leser: Prefix Tree Indexing for Similarity Search and Similarity Joins on Genomic Data. SSDBM 2010: 519-536

Falk Brauer, Michael Huber, Gregor Hackenbroich, Ulf Leser, Felix Naumann, Wojciech M. Barczynski: Graph-based concept identification and disambiguation for enterprise search. WWW 2010: 171-180

Thomas Kabisch, Eduard Constantin Dragut, Clement T. Yu, Ulf Leser: A Hierarchical Approach to Model Web Query Interfaces for Web Source Integration. PVLDB 2(1): 325-336 (2009)

Peter Palaga, Long Nguyen, Ulf Leser, Jörg Hakenberg: High-performance information extraction with AliBaba. EDBT 2009: 1140-1143

Alessandro De Stasio, Marcus Ertelt, Wolfgang Kemmner, Ulf Leser, Michele Ceccarelli: Exploiting scientific workflows for large-scale gene expression data analysis. ISCIS 2009: 448-453

Christoph Böhm, Philip Groth, Ulf Leser: Graph-Based Ontology Construction from Heterogenous Evidences. International Semantic Web Conference 2009: 81-96

Johannes Starlinger, Florian Leitner, Alfonso Valencia, Ulf Leser: SOA-Based Integration of Text Mining Services. SERVICES I 2009: 99-106

Alexandra Rostin, Oliver Albrecht, Jana Bauckmann, Felix Naumann, Ulf Leser: A Machine Learning Approach to Foreign Key Discovery. WebDB 2009

Ulf Leser, Silke Trißl: Graph Management in the Life Sciences. Encyclopedia of Database Systems 2009: 1266-1271

Ulf Leser: Semantic Data Integration for Life Science Entities. Encyclopedia of Database Systems 2009: 2555-2559

Philip Groth, Bertram Weiss, Hans-Dieter Pohlenz, Ulf Leser: Mining phenotypes for gene function prediction. BMC Bioinformatics 9 (2008)

Samira Jaeger, Sylvain Gaudan, Ulf Leser, Dietrich Rebholz-Schuhmann: Integrating protein-protein interactions and text mining for protein function prediction. BMC Bioinformatics 9(S-8) (2008)

Christian Chiarcos, Stefanie Dipper, Michael Götze, Ulf Leser, Anke Lüdeling, Julia Ritz, Manfred Stede: A Flexible Framework for Integrating Annotations from Different Tools and Tag Sets. TAL 49(2): 217-246 (2008)

Michael Ashburner, Ulf Leser, Dietrich Rebholz-Schuhmann: 08131 Executive Summary -- Ontologies and Text Mining for Life Sciences : Current Status and Future Perspectives. Ontologies and Text Mining for Life Sciences 2008

Ulf Leser, Philip Groth, Bertram Weiss, Hans-Dieter Pohlenz: Mining Phenotypes for Protein Function Prediction. Ontologies and Text Mining for Life Sciences 2008

Bastian Quilitz, Ulf Leser: Querying Distributed RDF Data Sources with SPARQL. ESWC 2008: 524-538

Michael Ashburner, Ulf Leser, Dietrich Rebholz-Schuhmann (Eds.): Ontologies and Text Mining for Life Sciences: Current Status and Future Perspectives, 24.03. - 28.03.2008. Dagstuhl Seminar Proceedings 08131, Internationales Begegnungs- und Forschungszentrum für Informatik (IBFI), Schloss Dagstuhl, Germany 2008

Ulf Leser, Felix Naumann: Informationsintegration - Architekturen und Methoden zur Integration verteilter und heterogener Datenquellen. dpunkt.verlag 2007, pp. I-XIII, 1-464

Philipp Hussels, Silke Trißl, Ulf Leser: What's New? What's Certain? - Scoring Search Results in the Presence of Overlapping Data Sources. DILS 2007: 231-246

Samira Jaeger, Ulf Leser: High-Precision Function Prediction using Conserved Interactions. German Conference on Bioinformatics 2007: 146-162

Jana Bauckmann, Ulf Leser, Felix Naumann, Veronique Tietz: Efficiently Detecting Inclusion Dependencies. ICDE 2007: 1448-1450

Silke Trißl, Ulf Leser: Fast and practical indexing and querying of very large graphs. SIGMOD Conference 2007: 845-856

Ulf Leser, Felix Naumann: Informationsintegration: Architekturen und Methoden zur Integration verteilter und heterogener Datenquellen. dpunkt 2006, isbn 3-89864-400-6

Uwe Radetzki, Ulf Leser, S. C. Schulze-Rauschenbach, J. Zimmermann, Jens Lüssem, Thomas Bode, Armin B. Cremers: Adapters, shims, and glue - service interoperability for in silico experiments. Bioinformatics 22(9): 1137-1143 (2006)

Conrad Plake, Torsten Schiemann, Marcus Pankalla, Jörg Hakenberg, Ulf Leser: ALIBABA: PubMed as a graph. Bioinformatics 22(19): 2444-2445 (2006)

Kristian Rother, Mathias Dunkel, Elke Michalsky, Silke Trißl, Andrean Goede, Ulf Leser, Robert Preissner: A structural keystone for drug design. J. Integrative Bioinformatics 3(1) (2006)

Heiko Müller, Johann Christoph Freytag, Ulf Leser: Describing differences between databases. CIKM 2006: 612-621

Lukas Faulstich, Ulf Leser, Thorsten Vitt: Implementing a Linguistic Query Language for Historic Texts. EDBT Workshops 2006: 601-612

Heiko Müller, Ulf Leser, Johann Christoph Freytag: Classification of Contradiction Patterns. GfKl 2006: 171-178

Jana Bauckmann, Ulf Leser, Felix Naumann: Efficiently Computing Inclusion Dependencies for Schema Discovery. ICDE Workshops 2006: 2

Ulf Leser, Felix Naumann, Barbara A. Eckman (Eds.): Data Integration in the Life Sciences, Third International Workshop, DILS 2006, Hinxton, UK, July 20-22, 2006, Proceedings. Lecture Notes in Computer Science 4075, Springer 2006, isbn 3-540-36593-1

Ulf Leser, Jörg Hakenberg: What makes a gene name? Named entity recognition in the biomedical literature. Briefings in Bioinformatics 6(4): 357-369 (2005)

Daniel Schober, Ulf Leser, Martin Zenke, Jens Reich: GandrKB--ontological microarray annotation and visualization. Bioinformatics 21(11): 2785-2786 (2005)

Jörg Hakenberg, Steffen Bickel, Conrad Plake, Ulf Brefeld, Hagen Zahn, Lukas Faulstich, Ulf Leser, Tobias Scheffer: Systematic feature evaluation for gene name recognition. BMC Bioinformatics 6(S-1) (2005)

Silke Trißl, Kristian Rother, Heiko Müller, Thomas Steinke, Ina Koch, Robert Preissner, Cornelius Frömmel, Ulf Leser: Columba: an integrated database of proteins, structures, and annotations. BMC Bioinformatics 6: 81 (2005)

Heiko Müller, Melanie Weis, Jens Bleiholder, Ulf Leser: Erkennen und Bereinigen von Datenfehlern in naturwissenschaftlichen Daten. Datenbank-Spektrum 15(14): 36- (2005)

Ulf Leser, Felix Naumann: (Almost) Hands-Off Information Integration for the Life Sciences. CIDR 2005: 131-143

Silke Trißl, Ulf Leser: Querying Ontologies in Relational Database Systems. DILS 2005: 63-79

Emilie Guérin, Gwenaëlle Marquet, Anita Burgun, Olivier Loréal, Laure Berti-Equille, Ulf Leser, Fouzia Moussouni: Integrating and Warehousing Liver Gene Expression Data and Related Biomedical Resources in GEDAW. DILS 2005: 158-174

Ulf Leser: A query language for biological networks. ECCB/JBI 2005: 39

Conrad Plake, Jörg Hakenberg, Ulf Leser: Optimizing syntax patterns for discovering protein-protein interactions. SAC 2005: 195-201

Felix Naumann, Johann Christoph Freytag, Ulf Leser: Completeness of integrated information sources. Inf. Syst. 29(7): 583-615 (2004)

Steffen Jurk, Ulf Leser, José-Luis Marzo: Cooperative Transaction Processing between Clients and Servers. ADBIS (Local Proceedings) 2004

Kristian Rother, Heiko Müller, Silke Trißl, Ina Koch, Thomas Steinke, Robert Preissner, Cornelius Frömmel, Ulf Leser: Columba: Multidimensional Data Integration of Protein Annotations. DILS 2004: 156-171

Heiko Müller, Ulf Leser, Johann Christoph Freytag: Mining for Patterns in Contradictory Data. IQIS 2004: 51-58

Ulf Leser, Peter Rieger: Integration molekularbiologischer Daten. Datenbank-Spektrum 6: 56-66 (2003)

Susanne Busse, Ralf-Detlef Kutsche, Ulf Leser: Strategies for the Conceptual Design of Federated Information Systems. EFIS 2000: 23-32

Ulf Leser, Felix Naumann: Query Planning with Information Quality Bounds. FQAS 2000: 85-94

Emmanuel Barillot, Ulf Leser, Philip Lijnzaad, Christophe Cussat-Blanc, Kim Jungfer, Frédéric Guyon, Guy Vaysseix, Carsten Helgesen, Patricia Rodriguez-Tomé: A proposal for a standard CORBA interface for genome maps. Bioinformatics 15(2): 157-169 (1999)

Steffen Möller, Ulf Leser, Wolfgang Fleischmann, Rolf Apweiler: EDITtoTrEMBL: a distributed approach to high-quality automated protein sequence annotation. Bioinformatics 15(3): 219-227 (1999)

Ulf Leser, Hugues Roest Crollius, Hans Lehrach, Ralf Sudbrak: IXDB, an X chromosome integrated database (update). Nucleic Acids Research 27(1): 123-127 (1999)

Ulf Leser: Designing a Global Information Resource for Molecular Biology. BTW 1999: 362-368

Kim Jungfer, Ulf Leser, Patricia Rodriguez-Tomé: Constructing IDL Views on Relational Databases. CAiSE 1999: 255-268

Heiko Müller, Ulf Leser: Integration durch Standards: Erfahrungen mit CORBA in Life Science Research. Föderierte Datenbanken 1999: 89-102

Felix Naumann, Ulf Leser: Density Scores for Cooperative Query Answering. Föderierte Datenbanken 1999: 103-116

Ulf Leser: Globale Anfragebearbeitung mit verteilten und heterogenen Datenquellen. GI Jahrestagung 1999: 265-272

Felix Naumann, Ulf Leser, Johann Christoph Freytag: Quality-driven Integration of Heterogenous Information Systems. VLDB 1999: 447-458

Ralf-Detlef Kutsche, Ulf Leser, Johann Christoph Freytag (Eds.): 4. Workshop Föderierte Datenbanken, Berlin, Germany, November 25-26, 1999. CEUR Workshop Proceedings 25, CEUR-WS.org 1999

Ulf Leser, Hans Lehrach, Hugues Roest Crollius: Issues in developing integrated genomic databases and application to the human X chromosome. Bioinformatics 14(7): 583-590 (1998)

Ulf Leser, Robert Wagner, Andrei Grigoriev, Hans Lehrach, Hugues Roest Crollius: IXDB, an X chromosome integrated database. Nucleic Acids Research 26(1): 108-111 (1998)

Ulf Leser: Query Mediation for Heterogeneous Data Sources. Föderierte Datenbanken 1998: 33-44

Steffen Möller, Ulf Leser, Wolfgang Fleischmann, Rolf Apweiler: EDITtoTrEMBL: A distributed approach to high-quality automated protein sequence annotation. German Conference on Bioinformatics 1998

Ulf Leser, Stefan Tai, Susanne Busse: Design Issues of Database Access in a CORBA Environment. Workshop Integration heterogener Softwaresysteme 1998: 74-87

Ulf Leser: Combining Heterogeneous Data Sources through Query Correspondence Assertions. Workshop on Web Information and Data Management 1998: 29-32

Ulf Leser: Ansätze zur Föderation moleklargenetischer Datenbanken. Datenbank Rundbrief 20: 57-61 (1997)

Ulf Leser, Robert Wagner, Hans Lehrach, Hugues Roest Crollius: IXDB, an integrated database for genomic data of the Human X Chromosome. German Conference on Bioinformatics 1997: 161-162