Ulf Leser
Orcid: 0000-0003-2166-9582Affiliations:
- Humboldt University of Berlin, Germany
According to our database1,
Ulf Leser
authored at least 240 papers
between 1997 and 2024.
Collaborative distances:
Collaborative distances:
Timeline
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Online presence:
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on zbmath.org
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on orcid.org
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on id.loc.gov
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on d-nb.info
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on dl.acm.org
On csauthors.net:
Bibliography
2024
Beyond Silos: Next Steps in Research Data Management Report from the 2024 Spring Symposium of FG Datenbanken.
Datenbank-Spektrum, July, 2024
Proc. VLDB Endow., April, 2024
preon: Fast and accurate entity normalization for drug names and cancer types in precision oncology.
Bioinform., March, 2024
Lotaru: Locally predicting workflow task runtimes for resource management on heterogeneous infrastructures.
Future Gener. Comput. Syst., January, 2024
Workflows Community Summit 2024: Future Trends and Challenges in Scientific Workflows.
CoRR, 2024
HunFlair2 in a cross-corpus evaluation of biomedical named entity recognition and normalization tools.
CoRR, 2024
Proceedings of the Workshops of the EDBT/ICDT 2024 Joint Conference co-located with the EDBT/ICDT 2024 Joint Conference, 2024
Optimizing Job/Task Granularity for Metagenomic Workflows in Heterogeneous Cluster Infrastructures.
Proceedings of the Workshops of the EDBT/ICDT 2024 Joint Conference co-located with the EDBT/ICDT 2024 Joint Conference, 2024
Proceedings of the 20th IEEE International Conference on e-Science, 2024
Proceedings of the 20th IEEE International Conference on e-Science, 2024
HU-WBI at BioASQ12B Phase A: Exploring Rank Fusion of Dense Retrievers and Re-rankers.
Proceedings of the Working Notes of the Conference and Labs of the Evaluation Forum (CLEF 2024), 2024
2023
WEASEL 2.0: a random dilated dictionary transform for fast, accurate and memory constrained time series classification.
Mach. Learn., December, 2023
A mathematical programming approach for resource allocation of data analysis workflows on heterogeneous clusters.
J. Supercomput., November, 2023
Bioinform., November, 2023
Dataset, May, 2023
Dataset, May, 2023
Integrating HPC, AI, and Workflows for Scientific Data Analysis (Dagstuhl Seminar 23352).
Dagstuhl Reports, 2023
Large Language Models to the Rescue: Reducing the Complexity in Scientific Workflow Development Using ChatGPT.
CoRR, 2023
Novel Approaches Toward Scalable Composable Workflows in Hyper-Heterogeneous Computing Environments.
Proceedings of the SC '23 Workshops of The International Conference on High Performance Computing, 2023
Applicability of Models Trained on Generated Clinical German Datasets on Out-domain Data.
Proceedings of the Lernen, 2023
Comparing Humans and Algorithms in Feature Ranking: A Case-Study in the Medical Domain.
Proceedings of the Lernen, 2023
Time Series Segmentation Applied to a New Data Set for Mobile Sensing of Human Activities.
Proceedings of the Workshops of the EDBT/ICDT 2023 Joint Conference, 2023
Proceedings of the 19th IEEE International Conference on e-Science, 2023
Proceedings of the 19th IEEE International Conference on e-Science, 2023
How Workflow Engines Should Talk to Resource Managers: A Proposal for a Common Workflow Scheduling Interface.
Proceedings of the 23rd IEEE/ACM International Symposium on Cluster, 2023
Proceedings of the Advanced Analytics and Learning on Temporal Data, 2023
2022
Proc. VLDB Endow., 2022
Chemical-protein relation extraction with ensembles of carefully tuned pretrained language models.
Database J. Biol. Databases Curation, 2022
Database J. Biol. Databases Curation, 2022
Lotaru: Locally Estimating Runtimes of Scientific Workflow Tasks in Heterogeneous Clusters.
Proceedings of the SSDBM 2022: 34th International Conference on Scientific and Statistical Database Management, Copenhagen, Denmark, July 6, 2022
Reshi: Recommending Resources for Scientific Workflow Tasks on Heterogeneous Infrastructures.
Proceedings of the IEEE International Performance, 2022
BEEDS: Large-Scale Biomedical Event Extraction using Distant Supervision and Question Answering.
Proceedings of the 21st Workshop on Biomedical Language Processing, 2022
Proceedings of the Advanced Analytics and Learning on Temporal Data, 2022
2021
Workflows Community Summit: Advancing the State-of-the-art of Scientific Workflows Management Systems Research and Development.
CoRR, 2021
HunFlair: an easy-to-use tool for state-of-the-art biomedical named entity recognition.
Bioinform., 2021
Bioinform., 2021
Proceedings of the 2021 IEEE Workshop on Workflows in Support of Large-Scale Science (WORKS), 2021
Extend, don't rebuild: Phrasing conditional graph modification as autoregressive sequence labelling.
Proceedings of the 2021 Conference on Empirical Methods in Natural Language Processing, 2021
FORCE on Nextflow: Scalable Analysis of Earth Observation Data on Commodity Clusters.
Proceedings of the CIKM 2021 Workshops co-located with 30th ACM International Conference on Information and Knowledge Management (CIKM 2021), 2021
Proceedings of the CIKM '21: The 30th ACM International Conference on Information and Knowledge Management, Virtual Event, Queensland, Australia, November 1, 2021
WBI at MEDIQA 2021: Summarizing Consumer Health Questions with Generative Transformers.
Proceedings of the 20th Workshop on Biomedical Language Processing, 2021
Proceedings of the 59th Annual Meeting of the Association for Computational Linguistics and the 11th International Joint Conference on Natural Language Processing, 2021
2020
Data Min. Knowl. Discov., 2020
DeepTable: a permutation invariant neural network for table orientation classification.
Data Min. Knowl. Discov., 2020
PEDL: extracting protein-protein associations using deep language models and distant supervision.
Bioinform., 2020
Proceedings of the 2020 IEEE International Conference on Big Data (IEEE BigData 2020), 2020
Proceedings of the 11th International Workshop on Health Text Mining and Information Analysis, 2020
2019
Predictive performance modeling for distributed batch processing using black box monitoring and machine learning.
Inf. Syst., 2019
BMC Bioinform., 2019
Proceedings of the 17th International Conference on High Performance Computing & Simulation, 2019
Proceedings of the 17th International Conference on High Performance Computing & Simulation, 2019
Proceedings of the 35th IEEE International Conference on Data Engineering, 2019
BB-Tree: A practical and efficient main-memory index structure for multidimensional workloads.
Proceedings of the Advances in Database Technology, 2019
Classifying German Animal Experiment Summaries with Multi-lingual BERT at CLEF eHealth 2019 Task 1.
Proceedings of the Working Notes of CLEF 2019, 2019
Proceedings of the Datenbanksysteme für Business, 2019
NLProlog: Reasoning with Weak Unification for Question Answering in Natural Language.
Proceedings of the 57th Conference of the Association for Computational Linguistics, 2019
2018
Proceedings of the Encyclopedia of Database Systems, Second Edition, 2018
Proceedings of the Encyclopedia of Database Systems, Second Edition, 2018
BMC Medical Informatics Decis. Mak., 2018
Predictive Performance Modeling for Distributed Computing using Black-Box Monitoring and Machine Learning.
CoRR, 2018
Proceedings of the 30th International Conference on Scientific and Statistical Database Management, 2018
Proceedings of the Conference "Lernen, Wissen, Daten, Analysen", 2018
Proceedings of the 34th IEEE International Conference on Data Engineering Workshops, 2018
Proceedings of the 26th ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems, 2018
Proceedings of the Workshops of the EDBT/ICDT 2018 Joint Conference (EDBT/ICDT 2018), 2018
Proceedings of the 14th IEEE International Conference on e-Science, 2018
WBI at CLEF eHealth 2018 Task 1: Language-independent ICD-10 Coding using Multi-lingual Embeddings and Recurrent Neural Networks.
Proceedings of the Working Notes of CLEF 2018, 2018
Proceedings of the BioNLP 2018 workshop, Melbourne, Australia, July 19, 2018, 2018
2017
J. Funct. Program., 2017
it Inf. Technol., 2017
ACM Comput. Surv., 2017
Estimating genome-wide regulatory activity from multi-omics data sets using mathematical optimization.
BMC Syst. Biol., 2017
Bioinform., 2017
Briefings Bioinform., 2017
Proceedings of the Natural Language Processing and Information Systems, 2017
Proceedings of the 20th International Conference on Extending Database Technology, 2017
Proceedings of the 20th International Conference on Extending Database Technology, 2017
Proceedings of the Big Data Analytics and Knowledge Discovery, 2017
Multi-lingual ICD-10 Coding using a Hybrid rule-based and Supervised Classification Approach at CLEF eHealth 2017.
Proceedings of the Working Notes of CLEF 2017, 2017
Proceedings of the 2017 ACM on Conference on Information and Knowledge Management, 2017
Proceedings of the Datenbanksysteme für Business, 2017
2016
IEEE ACM Trans. Comput. Biol. Bioinform., 2016
J. Lang. Technol. Comput. Linguistics, 2016
Future Gener. Comput. Syst., 2016
Bioinform., 2016
Proceedings of the Data Management on New Hardware, 2016
Proceedings of the 28th International Conference on Scientific and Statistical Database Management, 2016
Proceedings of the 7th International Symposium on Semantic Mining in Biomedicine, 2016
Proceedings of the 2016 International Conference on Management of Data, 2016
Proceedings of the Conference "Lernen, 2016
Proceedings of the Tenth International Conference on Language Resources and Evaluation LREC 2016, 2016
2015
Proc. VLDB Endow., 2015
Future Gener. Comput. Syst., 2015
Computer-assisted curation of a human regulatory core network from the biological literature.
Bioinform., 2015
BiobankCloud: A Platform for the Secure Storage, Sharing, and Processing of Large Biomedical Data Sets.
Proceedings of the Biomedical Data Management and Graph Online Querying, 2015
Proceedings of the 23rd SIGSPATIAL International Conference on Advances in Geographic Information Systems, 2015
Proceedings of the Workshops of the EDBT/ICDT 2015 Joint Conference (EDBT/ICDT), 2015
Proceedings of the Workshops of the EDBT/ICDT 2015 Joint Conference (EDBT/ICDT), 2015
2014
Briefings Bioinform., 2014
Proceedings of the 23rd International World Wide Web Conference, 2014
Proceedings of the International Conference on Management of Data, 2014
Proceedings of the 26th GI-Workshop Grundlagen von Datenbanken, 2014
Layer Decomposition: An Effective Structure-Based Approach for Scientific Workflow Similarity.
Proceedings of the 10th IEEE International Conference on e-Science, 2014
Proceedings of the Algorithms for Computational Biology - First International Conference, 2014
2013
IEEE ACM Trans. Comput. Biol. Bioinform., 2013
A detailed error analysis of 13 kernel methods for protein-protein interaction extraction.
BMC Bioinform., 2013
CELDA - an ontology for the comprehensive representation of cells in complex systems.
BMC Bioinform., 2013
Preliminary evaluation of the CellFinder literature curation pipeline for gene expression in kidney cells and anatomical parts.
Database J. Biol. Databases Curation, 2013
Proceedings of the 7th International Workshop on Semantic Evaluation, 2013
WBI-NER: The impact of domain-specific features on the performance of identifying and classifying mentions of drugs.
Proceedings of the 7th International Workshop on Semantic Evaluation, 2013
Proceedings of the 29th IEEE International Conference on Data Engineering, 2013
OmixAnalyzer - A Web-Based System for Management and Analysis of High-Throughput Omics Data Sets.
Proceedings of the Data Integration in the Life Sciences - 9th International Conference, 2013
Proceedings of the Datenbanksysteme für Business, 2013
Proceedings of the Advances in Databases and Information Systems, 2013
2012
Nucleic Acids Res., 2012
Proceedings of the Scientific and Statistical Database Management, 2012
Proceedings of the Scientific and Statistical Database Management, 2012
Proceedings of the Scientific and Statistical Database Management, 2012
String Searching in Referentially Compressed Genomes.
Proceedings of the KDIR 2012 - Proceedings of the International Conference on Knowledge Discovery and Information Retrieval, Barcelona, Spain, 4, 2012
Proceedings of the Data Integration in the Life Sciences - 8th International Conference, 2012
Proceedings of the 21st ACM International Conference on Information and Knowledge Management, 2012
2011
Molecular Event Extraction from Link Grammar Parse Trees in the BioNLP'09 Shared Task.
Comput. Intell., 2011
Proceedings of the 27th International Conference on Data Engineering, 2011
Proceedings of the 41. Jahrestagung der Gesellschaft für Informatik, 2011
Proceedings of the Euro-Par 2011: Parallel Processing Workshops - CCPI, CGWS, HeteroPar, HiBB, HPCVirt, HPPC, HPSS, MDGS, ProPer, Resilience, UCHPC, VHPC, Bordeaux, France, August 29, 2011
Not all links are equal: Exploiting Dependency Types for the Extraction of Protein-Protein Interactions from Text.
Proceedings of the 2011 Workshop on Biomedical Natural Language Processing, 2011
2010
A Comprehensive Benchmark of Kernel Methods to Extract Protein-Protein Interactions from Literature.
PLoS Comput. Biol., 2010
BMC Bioinform., 2010
Simple tricks for improving pattern-based information extraction from the biomedical literature.
J. Biomed. Semant., 2010
Proceedings of the 19th International Conference on World Wide Web, 2010
Proceedings of the Scientific and Statistical Database Management, 2010
Proceedings of the Current Trends in Web Engineering, 2010
An urban health risk analysis for Berlin: exploration and integration of spatio-temporal information on the urban environment.
Proceedings of the Integration of Environmental Information in Europe: Proceedings of the 24th International Conference on Informatics for Environmental Protection, 2010
Proceedings of the Local Proceedings of the Fourteenth East-European Conference on Advances in Databases and Information Systems, 2010
2009
Proceedings of the Encyclopedia of Database Systems, 2009
Proceedings of the Encyclopedia of Database Systems, 2009
Proc. VLDB Endow., 2009
Proceedings of the 12th International Workshop on the Web and Databases, 2009
Proceedings of the 2009 IEEE Congress on Services, Part I, 2009
Proceedings of the Semantic Web - ISWC 2009, 8th International Semantic Web Conference, 2009
Proceedings of the 24th International Symposium on Computer and Information Sciences, 2009
Proceedings of the EDBT 2009, 2009
Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, BioNLP@HLT-NAACL 2009, 2009
Proceedings of the Information Retrieval in Biomedicine, 2009
2008
Trait. Autom. des Langues, 2008
Integrating protein-protein interactions and text mining for protein function prediction.
BMC Bioinform., 2008
Proceedings of the Semantic Web: Research and Applications, 2008
Proceedings of the Ontologies and Text Mining for Life Sciences: Current Status and Future Perspectives, 24.03., 2008
08131 Executive Summary -- Ontologies and Text Mining for Life Sciences : Current Status and Future Perspectives.
Proceedings of the Ontologies and Text Mining for Life Sciences: Current Status and Future Perspectives, 24.03., 2008
2007
Proceedings of the ACM SIGMOD International Conference on Management of Data, 2007
Proceedings of the 23rd International Conference on Data Engineering, 2007
Proceedings of the German Conference on Bioinformatics, 2007
What's New? What's Certain? - Scoring Search Results in the Presence of Overlapping Data Sources.
Proceedings of the Data Integration in the Life Sciences, 4th International Workshop, 2007
Informationsintegration - Architekturen und Methoden zur Integration verteilter und heterogener Datenquellen.
dpunkt.verlag, 2007
2006
Adapters, shims, and glue - service interoperability for <i>in silico</i> experiments.
Bioinform., 2006
Proceedings of the Second International Symposium on Semantic Mining in Biomedicine, 2006
Proceedings of the 22nd International Conference on Data Engineering Workshops, 2006
Proceedings of the Advances in Data Analysis, 2006
Proceedings of the Current Trends in Database Technology - EDBT 2006, 2006
Proceedings of the 2006 ACM CIKM International Conference on Information and Knowledge Management, 2006
Informationsintegration: Architekturen und Methoden zur Integration verteilter und heterogener Datenquellen.
dpunkt, ISBN: 3-89864-400-6, 2006
2005
Datenbank-Spektrum, 2005
BMC Bioinform., 2005
Briefings Bioinform., 2005
Proceedings of the 2005 ACM Symposium on Applied Computing (SAC), 2005
Proceedings of the ECCB/JBI'05 Proceedings, Fourth European Conference on Computational Biology/Sixth Meeting of the Spanish Bioinformatics Network (Jornadas de BioInformática), Palacio de Congresos, Madrid, Spain, September 28, 2005
Proceedings of the Data Integration in the Life Sciences, Second InternationalWorkshop, 2005
Integrating and Warehousing Liver Gene Expression Data and Related Biomedical Resources in GEDAW.
Proceedings of the Data Integration in the Life Sciences, Second InternationalWorkshop, 2005
Proceedings of the Second Biennial Conference on Innovative Data Systems Research, 2005
2004
Proceedings of the Data Integration in the Life Sciences, First International Workshop, 2004
Proceedings of the Perspectives Workshop: Data Mining: The Next Generation, 11.07., 2004
Proceedings of the Advances in Databases and Information Systems, 2004
2003
Integration molekularbiologischer Daten.
Datenbank-Spektrum, 2003
2000
Proceedings of the Flexible Query Answering Systems, 2000
Strategies for the Conceptual Design of Federated Information Systems.
Proceedings of the Engineering Federated Information Systems, 2000
1999
EDITtoTrEMBL: a distributed approach to high-quality automated protein sequence annotation.
Bioinform., 1999
Proceedings of the VLDB'99, 1999
Proceedings of the Informatik '99, 1999
Proceedings of the 4. Workshop Föderierte Datenbanken, 1999
Proceedings of the 4. Workshop Föderierte Datenbanken, 1999
Proceedings of the Advanced Information Systems Engineering, 1999
Proceedings of the Datenbanksysteme in Büro, 1999
1998
Issues in developing integrated genomic databases and application to the human X chromosome.
Bioinform., 1998
Combining Heterogeneous Data Sources through Query Correspondence Assertions.
Proceedings of the CIKM'98 First Workshop on Web Information and Data Management (WIDM'98), 1998
Design Issues of Database Access in a CORBA Environment.
Proceedings of the Integration heterogener Softwaresysteme, IHS'98, 1998
Query Mediation for Heterogeneous Data Sources.
Proceedings of the 3. Workshop "Föderierte Datenbanken", 1998
1997
Ansätze zur Föderation moleklargenetischer Datenbanken.
Datenbank Rundbr., 1997
IXDB, an integrated database for genomic data of the Human X Chromosome.
Proceedings of the German Conference on Bioinformatics, 1997