Ulf Leser

According to our database1, Ulf Leser
  • authored at least 156 papers between 1997 and 2018.
  • has a "Dijkstra number"2 of three.

Timeline

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Bibliography

2018
Multidimensional Range Queries on Modern Hardware.
CoRR, 2018

2017
Computation semantics of the functional scientific workflow language Cuneiform.
J. Funct. Program., 2017

How to improve information extraction from German medical records.
it - Information Technology, 2017

Optimization of Complex Dataflows with User-Defined Functions.
ACM Comput. Surv., 2017

Multivariate Time Series Classification with WEASEL+MUSE.
CoRR, 2017

Fast and Accurate Time Series Classification with WEASEL.
CoRR, 2017

Estimating genome-wide regulatory activity from multi-omics data sets using mathematical optimization.
BMC Systems Biology, 2017

Deep learning with word embeddings improves biomedical named entity recognition.
Bioinformatics, 2017

Comparative assessment of differential network analysis methods.
Briefings in Bioinformatics, 2017

Fine-Grained Opinion Mining from Mobile App Reviews with Word Embedding Features.
Proceedings of the Natural Language Processing and Information Systems, 2017

Exact and Approximate Algorithms for Finding k-Shortest Paths with Limited Overlap.
Proceedings of the 20th International Conference on Extending Database Technology, 2017

Hi-WAY: Execution of Scientific Workflows on Hadoop YARN.
Proceedings of the 20th International Conference on Extending Database Technology, 2017

Modeling Data Flow Execution in a Parallel Environment.
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

Fast and Accurate Time Series Classification with WEASEL.
Proceedings of the 2017 ACM on Conference on Information and Knowledge Management, 2017

Benchmarking Univariate Time Series Classifiers.
Proceedings of the Datenbanksysteme für Business, 2017

2016
Fast Sampling-Based Whole-Genome Haplotype Block Recognition.
IEEE/ACM Trans. Comput. Biology Bioinform., 2016

Recognizing chemicals in patents: a comparative analysis.
J. Cheminformatics, 2016

Effective and efficient similarity search in scientific workflow repositories.
Future Generation Comp. Syst., 2016

SETH detects and normalizes genetic variants in text.
Bioinformatics, 2016

SoFIA: a data integration framework for annotating high-throughput datasets.
Bioinformatics, 2016

Cache-Sensitive Skip List: Efficient Range Queries on Modern CPUs.
Proceedings of the Data Management on New Hardware, 2016

PIEJoin: Towards Parallel Set Containment Joins.
Proceedings of the 28th International Conference on Scientific and Statistical Database Management, 2016

Performance of Gene Name Recognition Tools on Patents.
Proceedings of the 7th International Symposium on Semantic Mining in Biomedicine, 2016

Potential and Pitfalls of Domain-Specific Information Extraction at Web Scale.
Proceedings of the 2016 International Conference on Management of Data, 2016

Graph n-grams for Scientific Workflow Similarity Search.
Proceedings of the Conference "Lernen, 2016

SCARE ― The Sentiment Corpus of App Reviews with Fine-grained Annotations in German.
Proceedings of the Tenth International Conference on Language Resources and Evaluation LREC 2016, 2016

2015
MRCSI: Compressing and Searching String Collections with Multiple References.
PVLDB, 2015

SAASFEE: Scalable Scientific Workflow Execution Engine.
PVLDB, 2015

SOFA: An extensible logical optimizer for UDF-heavy data flows.
Inf. Syst., 2015

DynamicCloudSim: Simulating heterogeneity in computational clouds.
Future Generation Comp. Syst., 2015

Computer-assisted curation of a human regulatory core network from the biological literature.
Bioinformatics, 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

Alternative routing: k-shortest paths with limited overlap.
Proceedings of the 23rd SIGSPATIAL International Conference on Advances in Geographic Information Systems, 2015

Massively Parallel Analysis of Similarity Matrices on Heterogeneous Hardware.
Proceedings of the Workshops of the EDBT/ICDT 2015 Joint Conference (EDBT/ICDT), 2015

Cuneiform: a Functional Language for Large Scale Scientific Data Analysis.
Proceedings of the Workshops of the EDBT/ICDT 2015 Joint Conference (EDBT/ICDT), 2015

2014
The Stratosphere platform for big data analytics.
VLDB J., 2014

State-of-the-art in string similarity search and join.
SIGMOD Record, 2014

Similarity Search for Scientific Workflows.
PVLDB, 2014

CellFinder: a cell data repository.
Nucleic Acids Research, 2014

A survey on annotation tools for the biomedical literature.
Briefings in Bioinformatics, 2014

Extracting and aggregating temporal events from text.
Proceedings of the 23rd International World Wide Web Conference, 2014

Versatile optimization of UDF-heavy data flows with sofa.
Proceedings of the International Conference on Management of Data, 2014

Next Generation Data Integration (for the Life Sciences).
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

RRCA: Ultra-Fast Multiple In-species Genome Alignments.
Proceedings of the Algorithms for Computational Biology - First International Conference, 2014

2013
FRESCO: Referential Compression of Highly Similar Sequences.
IEEE/ACM Trans. Comput. Biology Bioinform., 2013

RCSI: Scalable similarity search in thousand(s) of genomes.
PVLDB, 2013

Parallelization in Scientific Workflow Management Systems
CoRR, 2013

SOFA: An Extensible Logical Optimizer for UDF-heavy Dataflows.
CoRR, 2013

A detailed error analysis of 13 kernel methods for protein-protein interaction extraction.
BMC Bioinformatics, 2013

CELDA - an ontology for the comprehensive representation of cells in complex systems.
BMC Bioinformatics, 2013

Using ontologies to study cell transitions.
J. Biomedical Semantics, 2013

Preliminary evaluation of the CellFinder literature curation pipeline for gene expression in kidney cells and anatomical parts.
Database, 2013

DynamicCloudSim: simulating heterogeneity in computational clouds.
Proceedings of the 2nd ACM SIGMOD Workshop on Scalable Workflow Execution Engines and Technologies, 2013

WBI-DDI: Drug-Drug Interaction Extraction using Majority Voting.
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

CPU and cache efficient management of memory-resident databases.
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

Experiences from Developing the Domain-Specific Entity Search Engine GeneView.
Proceedings of the Datenbanksysteme für Business, 2013

QGramProjector: Q-Gram Projection for Indexing Highly-Similar Strings.
Proceedings of the Advances in Databases and Information Systems, 2013

2012
GeneView: a comprehensive semantic search engine for PubMed.
Nucleic Acids Research, 2012

Improving data quality by source analysis.
J. Data and Information Quality, 2012

Data Management Challenges in Next Generation Sequencing.
Datenbank-Spektrum, 2012

ChemSpot: a hybrid system for chemical named entity recognition.
Bioinformatics, 2012

Tools for managing and analyzing microarray data.
Briefings in Bioinformatics, 2012

Adaptive efficient compression of genomes.
Algorithms for Molecular Biology, 2012

(Re)Use in Public Scientific Workflow Repositories.
Proceedings of the Scientific and Statistical Database Management, 2012

Regular Path Queries on Large Graphs.
Proceedings of the Scientific and Statistical Database Management, 2012

Efficient Similarity Search in Very Large String Sets.
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

InterOnto - Ranking Inter-Ontology Links.
Proceedings of the Data Integration in the Life Sciences - 8th International Conference, 2012

Discovering conditional inclusion dependencies.
Proceedings of the 21st ACM International Conference on Information and Knowledge Management, 2012

2011
Search, adapt, and reuse: the future of scientific workflows.
SIGMOD Record, 2011

Molecular Event Extraction from Link Grammar Parse Trees in the BioNLP'09 Shared Task.
Computational Intelligence, 2011

BioCreative III interactive task: an overview.
BMC Bioinformatics, 2011

Next generation data integration for Life Sciences.
Proceedings of the 27th International Conference on Data Engineering, 2011

Pipa: custom integration of protein interactions and pathways.
Proceedings of the Informatik 2011: Informatik schafft Communities, 2011

Scalable Sequence Similarity Search and Join in Main Memory on Multi-cores.
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
Deep Web Integration with VisQI.
PVLDB, 2010

A Comprehensive Benchmark of Kernel Methods to Extract Protein-Protein Interactions from Literature.
PLoS Computational Biology, 2010

A fast and effective dependency graph kernel for PPI relation extraction.
BMC Bioinformatics, 2010

Species identification for gene name normalization.
BMC Bioinformatics, 2010

Simple tricks for improving pattern-based information extraction from the biomedical literature.
J. Biomedical Semantics, 2010

Phenoclustering: online mining of cross-species phenotypes.
Bioinformatics, 2010

Graph-based concept identification and disambiguation for enterprise search.
Proceedings of the 19th International Conference on World Wide Web, 2010

Prefix Tree Indexing for Similarity Search and Similarity Joins on Genomic Data.
Proceedings of the Scientific and Statistical Database Management, 2010

Selecting Materialized Views for RDF Data.
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 EnviroInfo 2010: Integration of Environmental Information in Europe, 2010

Estimating Result Size and Execution Times for Graph Queries.
Proceedings of the Local Proceedings of the Fourteenth East-European Conference on Advances in Databases and Information Systems, 2010

2009
Graph Management in the Life Sciences.
Proceedings of the Encyclopedia of Database Systems, 2009

Semantic Data Integration for Life Science Entities.
Proceedings of the Encyclopedia of Database Systems, 2009

A Hierarchical Approach to Model Web Query Interfaces for Web Source Integration.
PVLDB, 2009

A Machine Learning Approach to Foreign Key Discovery.
Proceedings of the 12th International Workshop on the Web and Databases, 2009

SOA-Based Integration of Text Mining Services.
Proceedings of the 2009 IEEE Congress on Services, Part I, 2009

Graph-Based Ontology Construction from Heterogenous Evidences.
Proceedings of the Semantic Web - ISWC 2009, 8th International Semantic Web Conference, 2009

Exploiting scientific workflows for large-scale gene expression data analysis.
Proceedings of the 24th International Symposium on Computer and Information Sciences, 2009

High-performance information extraction with AliBaba.
Proceedings of the EDBT 2009, 2009

Molecular event extraction from Link Grammar parse trees.
Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, BioNLP@HLT-NAACL 2009, 2009

2008
A Flexible Framework for Integrating Annotations from Different Tools and Tag Sets.
TAL, 2008

Integrating protein-protein interactions and text mining for protein function prediction.
BMC Bioinformatics, 2008

Mining phenotypes for gene function prediction.
BMC Bioinformatics, 2008

Querying Distributed RDF Data Sources with SPARQL.
Proceedings of the Semantic Web: Research and Applications, 2008

Mining Phenotypes for Protein Function Prediction.
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
Fast and practical indexing and querying of very large graphs.
Proceedings of the ACM SIGMOD International Conference on Management of Data, 2007

Efficiently Detecting Inclusion Dependencies.
Proceedings of the 23rd International Conference on Data Engineering, 2007

High-Precision Function Prediction using Conserved Interactions.
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
A structural keystone for drug design.
J. Integrative Bioinformatics, 2006

Adapters, shims, and glue - service interoperability for in silico experiments.
Bioinformatics, 2006

ALIBABA: PubMed as a graph.
Bioinformatics, 2006

Collecting a Large Corpus from all of Medline.
Proceedings of the Second International Symposium on Semantic Mining in Biomedicine, 2006

Efficiently Computing Inclusion Dependencies for Schema Discovery.
Proceedings of the 22nd International Conference on Data Engineering Workshops, 2006

Classification of Contradiction Patterns.
Proceedings of the Advances in Data Analysis, 2006

Implementing a Linguistic Query Language for Historic Texts.
Proceedings of the Current Trends in Database Technology - EDBT 2006, 2006

Describing differences between databases.
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
Erkennen und Bereinigen von Datenfehlern in naturwissenschaftlichen Daten.
Datenbank-Spektrum, 2005

Columba: an integrated database of proteins, structures, and annotations.
BMC Bioinformatics, 2005

Systematic feature evaluation for gene name recognition.
BMC Bioinformatics, 2005

GandrKB--ontological microarray annotation and visualization.
Bioinformatics, 2005

What makes a gene name? Named entity recognition in the biomedical literature.
Briefings in Bioinformatics, 2005

Optimizing syntax patterns for discovering protein-protein interactions.
Proceedings of the 2005 ACM Symposium on Applied Computing (SAC), 2005

A query language for biological networks.
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

Querying Ontologies in Relational Database Systems.
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

(Almost) Hands-Off Information Integration for the Life Sciences.
Proceedings of the CIDR 2005, 2005

2004
Completeness of integrated information sources.
Inf. Syst., 2004

Mining for Patterns in Contradictory Data.
Proceedings of the IQIS 2004, 2004

Columba: Multidimensional Data Integration of Protein Annotations.
Proceedings of the Data Integration in the Life Sciences, First International Workshop, 2004


Cooperative Transaction Processing between Clients and Servers.
ADBIS (Local Proceedings), 2004

2003
Integration molekularbiologischer Daten.
Datenbank-Spektrum, 2003

2000
Query planning in mediator based information systems.
PhD thesis, 2000

Query Planning with Information Quality Bounds.
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
IXDB, an X chromosome integrated database (update).
Nucleic Acids Research, 1999

EDITtoTrEMBL: a distributed approach to high-quality automated protein sequence annotation.
Bioinformatics, 1999

A proposal for a standard CORBA interface for genome maps.
Bioinformatics, 1999

Quality-driven Integration of Heterogenous Information Systems.
Proceedings of the VLDB'99, 1999

Globale Anfragebearbeitung mit verteilten und heterogenen Datenquellen.
Proceedings of the Informatik '99, 1999

Density Scores for Cooperative Query Answering.
Proceedings of the 4. Workshop Föderierte Datenbanken, 1999

Integration durch Standards: Erfahrungen mit CORBA in Life Science Research.
Proceedings of the 4. Workshop Föderierte Datenbanken, 1999

Constructing IDL Views on Relational Databases.
Proceedings of the Advanced Information Systems Engineering, 1999

Designing a Global Information Resource for Molecular Biology.
Proceedings of the Datenbanksysteme in Büro, 1999

1998
IXDB, an X chromosome integrated database.
Nucleic Acids Research, 1998

Issues in developing integrated genomic databases and application to the human X chromosome.
Bioinformatics, 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

EDITtoTrEMBL: A distributed approach to high-quality automated protein sequence annotation.
German Conference on Bioinformatics, 1998

Query Mediation for Heterogeneous Data Sources.
Föderierte Datenbanken, 1998

1997
Ansätze zur Föderation moleklargenetischer Datenbanken.
Datenbank Rundbrief, 1997

IXDB, an integrated database for genomic data of the Human X Chromosome.
German Conference on Bioinformatics, 1997


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