Erik M. van Mulligen

According to our database, Erik M. van Mulligen authored at least 76 papers between 1994 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

Annotation-preserving machine translation of English corpora to validate Dutch clinical concept extraction tools.

Tom M. Seinen, Jan A. Kors, Erik M. van Mulligen, Peter R. Rijnbeek

J. Am. Medical Informatics Assoc., 2024

Using clinical text to refine unspecific condition codes in Dutch general practitioner EHR data.

Tom M. Seinen, Jan A. Kors, Erik M. van Mulligen, Egill A. Fridgeirsson, Katia M. C. Verhamme, Peter R. Rijnbeek

Int. J. Medical Informatics, 2024

Biomedical Entity Linking for Dutch: Fine-tuning a Self-alignment BERT Model on an Automatically Generated Wikipedia Corpus.

Fons Hartendorp, Tom M. Seinen, Erik M. van Mulligen, Suzan Verberne

CoRR, 2024

2023

The added value of text from Dutch general practitioner notes in predictive modeling.

Tom M. Seinen, Jan A. Kors, Erik M. van Mulligen, Egill A. Fridgeirsson, Peter R. Rijnbeek

J. Am. Medical Informatics Assoc., November, 2023

2022

Use of unstructured text in prognostic clinical prediction models: a systematic review.

Tom M. Seinen, Egill A. Fridgeirsson, Solomon Ioannou, Daniel Jeannetot, Luis H. John, Jan A. Kors, Aniek F. Markus, Victor Pera, Alexandros Rekkas, Ross D. Williams, Cynthia Yang, Erik M. van Mulligen, Peter R. Rijnbeek

J. Am. Medical Informatics Assoc., 2022

2020

Identifying disease trajectories with predicate information from a knowledge graph.

Wytze J. Vlietstra, Rein Vos, Marjan van den Akker, Erik M. van Mulligen, Jan A. Kors

J. Biomed. Semant., 2020

2019

Using Predicate Information from a Knowledge Graph to Identify Disease Trajectories.

Wytze Vlietstra, Rein Vos, Erik M. van Mulligen, Jan A. Kors

Proceedings of the AAAI 2019 Spring Symposium on Combining Machine Learning with Knowledge Engineering (AAAI-MAKE 2019) Stanford University, 2019

2018

QTLTableMiner++: semantic mining of QTL tables in scientific articles.

Gurnoor Singh, Arnold Kuzniar, Erik M. van Mulligen, Anand Gavai, Christian W. Bachem, Richard G. F. Visser, Richard Finkers

BMC Bioinform., 2018

Using predicate and provenance information from a knowledge graph for drug efficacy screening.

Wytze J. Vlietstra, Rein Vos, Anneke M. Sijbers, Erik M. van Mulligen, Jan A. Kors

J. Biomed. Semant., 2018

2017

Interoperability and FAIRness through a novel combination of Web technologies.

Mark D. Wilkinson, Ruben Verborgh, Luiz Olavo Bonino da Silva Santos, Tim Clark, Morris A. Swertz, Fleur D. L. Kelpin, Alasdair J. G. Gray, Erik A. Schultes, Erik M. van Mulligen, Paolo Ciccarese, Arnold Kuzniar, Anand Gavai, Mark Thompson, Rajaram Kaliyaperumal, Jerven T. Bolleman, Michel Dumontier

PeerJ Prepr., 2017

Automated extraction of potential migraine biomarkers using a semantic graph.

Wytze J. Vlietstra, Ronald Zielman, Robin M. van Dongen, Erik A. Schultes, Floris Wiesman, Rein Vos, Erik M. van Mulligen, Jan A. Kors

J. Biomed. Informatics, 2017

2016

Interoperability and FAIRness through a novel combination of Web technologies.

Mark D. Wilkinson, Ruben Verborgh, Luiz Olavo Bonino da Silva Santos, Tim Clark, Morris A. Swertz, Fleur D. L. Kelpin, Alasdair J. G. Gray, Erik A. Schultes, Erik M. van Mulligen, Paolo Ciccarese, Mark Thompson, Rajaram Kaliyaperumal, Jerven T. Bolleman, Michel Dumontier

PeerJ Prepr., 2016

Extraction of chemical-induced diseases using prior knowledge and textual information.

Ewoud Pons, Benedikt F. H. Becker, Saber A. Akhondi, Zubair Afzal, Erik M. van Mulligen, Jan A. Kors

Database J. Biol. Databases Curation, 2016

Chemical entity recognition in patents by combining dictionary-based and statistical approaches.

Saber A. Akhondi, Ewoud Pons, Zubair Afzal, Herman van Haagen, Benedikt F. H. Becker, Kristina M. Hettne, Erik M. van Mulligen, Jan A. Kors

Database J. Biol. Databases Curation, 2016

Discovering Information from an Integrated Graph Database.

Erik M. van Mulligen, Wytze Vlietstra, Rein Vos, Jan A. Kors

Proceedings of the 9th International Conference Semantic Web Applications and Tools for Life Sciences, 2016

SEMCARE: Multilingual Semantic Search in Semi-Structured Clinical Data.

Pablo López-García, Markus Kreuzthaler, Stefan Schulz, Daniel Scherr, Philipp Daumke, Kornél G. Markó, Jan A. Kors, Erik M. van Mulligen, Xinkai Wang, Hanney Gonna, Elijah Behr, Angel Honrado

Proceedings of the Health Informatics Meets eHealth - Predictive Modeling in Healthcare - From Prediction to Prevention, 2016

Erasmus MC at CLEF eHealth 2016: Concept Recognition and Coding in French Texts.

Erik M. van Mulligen, Zubair Afzal, Saber A. Akhondi, Dang Vo, Jan A. Kors

Proceedings of the Working Notes of CLEF 2016, 2016

Concept Recognition in French Biomedical Text Using Automatic Translation.

Zubair Afzal, Saber A. Akhondi, Herman H. H. B. M. van Haagen, Erik M. van Mulligen, Jan A. Kors

Proceedings of the Experimental IR Meets Multilinguality, Multimodality, and Interaction, 2016

2015

Recognition of chemical entities: combining dictionary-based and grammar-based approaches.

Saber A. Akhondi, Kristina M. Hettne, Eelke van der Horst, Erik M. van Mulligen, Jan A. Kors

J. Cheminformatics, 2015

A multilingual gold-standard corpus for biomedical concept recognition: the Mantra GSC.

Jan A. Kors, Simon Clematide, Saber A. Akhondi, Erik M. van Mulligen, Dietrich Rebholz-Schuhmann

J. Am. Medical Informatics Assoc., 2015

Information from Semantic Integration of Texts and Databases.

Erik M. van Mulligen, Wytze Vlietstra, Rein Vos, Jan A. Kors

Proceedings of the 8th Semantic Web Applications and Tools for Life Sciences International Conference, 2015

Biomedical Concept Recognition in French Text Using Automatic Translation of English Terms.

Zubair Afzal, Saber A. Akhondi, Herman van Haagen, Erik M. van Mulligen, Jan A. Kors

Proceedings of the Working Notes of CLEF 2015, 2015

SEMCARE - Semantic Data Platform for Healthcare.

Philipp Daumke, Claudia Riede, Thomas Fassbender, Angel Honrado, Markus Kreuzthaler, Pablo López-García, Stefan Schulz, Erik M. van Mulligen, Herman van Haagen, Jan A. Kors, Hanney Gonna, Xinkai Wang, Elijah Behr

Proceedings of the AMIA 2015, 2015

2014

Finding potentially new multimorbidity patterns of psychiatric and somatic diseases: exploring the use of literature-based discovery in primary care research.

Rein Vos, Sil Aarts, Erik M. van Mulligen, Job Metsemakers, Martin P. van Boxtel, Frans Verhey, Marjan van den Akker

J. Am. Medical Informatics Assoc., 2014

Explain your data by Concept Profile Analysis Web Services.

Kristina M. Hettne, Reinout van Schouwen, Eleni Mina, Eelke van der Horst, Mark Thompson, Rajaram Kaliyaperumal, Barend Mons, Erik M. van Mulligen, Jan A. Kors, Marco Roos

F1000Research, 2014

Knowledge-based extraction of adverse drug events from biomedical text.

Ning Kang, Bharat Singh, Quoc-Chinh Bui, Zubair Afzal, Erik M. van Mulligen, Jan A. Kors

BMC Bioinform., 2014

A novel feature-based approach to extract drug-drug interactions from biomedical text.

Quoc-Chinh Bui, Peter M. A. Sloot, Erik M. van Mulligen, Jan A. Kors

Bioinform., 2014

2013

Using rule-based natural language processing to improve disease normalization in biomedical text.

Ning Kang, Bharat Singh, Zubair Afzal, Erik M. van Mulligen, Jan A. Kors

J. Am. Medical Informatics Assoc., 2013

Multilingual Semantic Resources and Parallel Corpora in the Biomedical Domain: the CLEF-ER Challenge.

Dietrich Rebholz-Schuhmann, Simon Clematide, Fabio Rinaldi, Senay Kafkas, Erik M. van Mulligen, Quoc-Chinh Bui, Johannes Hellrich, Ian Lewin, David Milward, Michael Poprat, Antonio Jimeno-Yepes, Udo Hahn, Jan A. Kors

Proceedings of the Working Notes for CLEF 2013 Conference , 2013

Entity Recognition in Parallel Multi-lingual Biomedical Corpora: The CLEF-ER Laboratory Overview.

Dietrich Rebholz-Schuhmann, Simon Clematide, Fabio Rinaldi, Senay Kafkas, Erik M. van Mulligen, Quoc-Chinh Bui, Johannes Hellrich, Ian Lewin, David Milward, Michael Poprat, Antonio Jimeno-Yepes, Udo Hahn, Jan A. Kors

Proceedings of the Information Access Evaluation. Multilinguality, Multimodality, and Visualization, 2013

Machine Translation of Bio-Thesauri.

Erik M. van Mulligen, Quoc-Chinh Bui, Jan A. Kors

Proceedings of the Working Notes for CLEF 2013 Conference , 2013

Creating Multilingual Gold Standard Corpora for Biomedical Concept Recognition.

Jan A. Kors, Simon Clematide, Saber A. Akhondi, Erik M. van Mulligen, Dietrich Rebholz-Schuhmann

Proceedings of the Working Notes for CLEF 2013 Conference , 2013

A fast rule-based approach for biomedical event extraction.

Quoc-Chinh Bui, David Campos, Erik M. van Mulligen, Jan A. Kors

Proceedings of the BioNLP Shared Task 2013 Workshop, Sofia, 2013

2012

Automatic Filtering and Substantiation of Drug Safety Signals.

Anna Bauer-Mehren, Erik M. van Mulligen, Paul Avillach, María del Carmen Carrascosa, Ricard García-Serna, Janet Piñero González, Bharat Singh, Pedro Lopes, José Luís Oliveira, Gayo Diallo, Ernst Ahlberg Helgee, Scott Boyer, Jordi Mestres, Ferran Sanz, Jan A. Kors, Laura Inés Furlong

PLoS Comput. Biol., 2012

The EU-ADR corpus: Annotated drugs, diseases, targets, and their relationships.

Erik M. van Mulligen, Annie Fourrier-Réglat, David Gurwitz, Mariam Molokhia, Ainhoa Nieto, Gianluca Trifirò, Jan A. Kors, Laura Inés Furlong

J. Biomed. Informatics, 2012

Using an ensemble system to improve concept extraction from clinical records.

Ning Kang, Zubair Afzal, Bharat Singh, Erik M. van Mulligen, Jan A. Kors

J. Biomed. Informatics, 2012

Training text chunkers on a silver standard corpus: can silver replace gold?

Ning Kang, Erik M. van Mulligen, Jan A. Kors

BMC Bioinform., 2012

CALBC: Releasing the Final Corpora.

Senay Kafkas, Ian Lewin, David Milward, Erik M. van Mulligen, Jan A. Kors, Udo Hahn, Dietrich Rebholz-Schuhmann

Proceedings of the Eighth International Conference on Language Resources and Evaluation, 2012

2011

Comparing and combining chunkers of biomedical text.

Ning Kang, Erik M. van Mulligen, Jan A. Kors

J. Biomed. Informatics, 2011

Assessment of NER solutions against the first and second CALBC Silver Standard Corpus.

Dietrich Rebholz-Schuhmann, Antonio Jimeno-Yepes, Chen Li, Senay Kafkas, Ian Lewin, Ning Kang, Peter T. Corbett, David Milward, Ekaterina Buyko, Elena Beisswanger, Kerstin Hornbostel, Alexandre Kouznetsov, René Witte, Jonas B. Laurila, Christopher J. O. Baker, Cheng-Ju Kuo, Simon Clematide, Fabio Rinaldi, Richárd Farkas, György Móra, Kazuo Hara, Laura Inés Furlong, Michael Rautschka, Mariana L. Neves, Alberto D. Pascual-Montano, Qi Wei, Nigel Collier, Md. Faisal Mahbub Chowdhury, Alberto Lavelli, Rafael Berlanga Llavori, Roser Morante, Vincent Van Asch, Walter Daelemans, José Luís Marina, Erik M. van Mulligen, Jan A. Kors, Udo Hahn

J. Biomed. Semant., 2011

2010

Automatic vs. manual curation of a multi-source chemical dictionary: the impact on text mining (Correction).

Kristina M. Hettne, Antony J. Williams, Erik M. van Mulligen, Jos Kleinjans, Valery Tkachenko, Jan A. Kors

J. Cheminformatics, 2010

Automatic vs. manual curation of a multi-source chemical dictionary: the impact on text mining.

Kristina M. Hettne, Antony J. Williams, Erik M. van Mulligen, Jos Kleinjans, Valery Tkachenko, Jan A. Kors

J. Cheminformatics, 2010

Calbc Silver Standard Corpus.

Dietrich Rebholz-Schuhmann, Antonio Jimeno-Yepes, Erik M. van Mulligen, Ning Kang, Jan A. Kors, David Milward, Peter T. Corbett, Ekaterina Buyko, Elena Beisswanger, Udo Hahn

J. Bioinform. Comput. Biol., 2010

Rewriting and suppressing UMLS terms for improved biomedical term identification.

Kristina M. Hettne, Erik M. van Mulligen, Martijn J. Schuemie, Bob J. A. Schijvenaars, Jan A. Kors

J. Biomed. Semant., 2010

A Concept Annotation System for Clinical Records.

Ning Kang, Rogier Barendse, Zubair Afzal, Bharat Singh, Martijn J. Schuemie, Erik M. van Mulligen, Jan A. Kors

Proceedings of the Workshop on Semantic Web Applications and Tools for Life Sciences, 2010

The CALBC Silver Standard Corpus for Biomedical Named Entities - A Study in Harmonizing the Contributions from Four Independent Named Entity Taggers.

Dietrich Rebholz-Schuhmann, Antonio José Jimeno-Yepes, Erik M. van Mulligen, Ning Kang, Jan A. Kors, David Milward, Peter T. Corbett, Ekaterina Buyko, Katrin Tomanek, Elena Beisswanger, Udo Hahn

Proceedings of the International Conference on Language Resources and Evaluation, 2010

2009

Alignment of the UMLS semantic network with BioTop: methodology and assessment.

Stefan Schulz, Elena Beisswanger, László van den Hoek, Olivier Bodenreider, Erik M. van Mulligen

Bioinform., 2009

A dictionary to identify small molecules and drugs in free text.

Kristina M. Hettne, Rob H. Stierum, Martijn J. Schuemie, Peter J. M. Hendriksen, Bob J. A. Schijvenaars, Erik M. van Mulligen, Jos Kleinjans, Jan A. Kors

Bioinform., 2009

2008

Model Formulation: Training Multidisciplinary Biomedical Informatics Students: Three Years of Experience.

Erik M. van Mulligen, Montserrat Cases, Kristina M. Hettne, Eva Molero, Marc Weeber, Kevin A. Robertson, Baldomero Oliva, Guillermo de la Calle, Victor Maojo

J. Am. Medical Informatics Assoc., 2008

Literature-based concept profiles for gene annotation: The issue of weighting.

Rob Jelier, Martijn J. Schuemie, Peter-Jan Roes, Erik M. van Mulligen, Jan A. Kors

Int. J. Medical Informatics, 2008

BioTop and ChemTop - Top-Domain Ontologies for Biology and Chemistry.

Holger Stenzhorn, Stefan Schulz, Elena Beisswanger, Udo Hahn, László van den Hoek, Erik M. van Mulligen

Proceedings of the Poster and Demonstration Session at the 7th International Semantic Web Conference (ISWC2008), 2008

2007

Medical Informatics and Bioinformatics: A Bibliometric Study.

Jean-Yves Bansard, Dietrich Rebholz-Schuhmann, Graham Cameron, Dominic Clark, Erik M. van Mulligen, Francesco Beltrame, Eva del Hoyo-Barbolla, Fernando Martín-Sánchez, Luciano Milanesi, Ioannis G. Tollis, Johan van der Lei, Jean-Louis Coatrieux

IEEE Trans. Inf. Technol. Biomed., 2007

SYMBIOmatics: Synergies in Medical Informatics and Bioinformatics - exploring current scientific literature for emerging topics.

Dietrich Rebholz-Schuhmann, Graham Cameron, Dominic Clark, Erik M. van Mulligen, Jean-Louis Coatrieux, Eva del Hoyo-Barbolla, Fernando Martín-Sánchez, Luciano Milanesi, Ivan Porro, Francesco Beltrame, Ioannis G. Tollis, Johan van der Lei

BMC Bioinform., 2007

2006

Databases for knowledge discovery: Examples from biomedicine and health care.

Jan H. van Bemmel, Erik M. van Mulligen, Barend Mons, Mark A. van Wijk, Jan A. Kors, Johan van der Lei

Int. J. Medical Informatics, 2006

An Online Ontology: WiktionaryZ.

Erik M. van Mulligen, Erik Möller, Peter-Jan Roes, Marc Weeber, Gerard Meijssen, Barend Mons

Proceedings of the KR-MED 2006, 2006

2005

Thesaurus-based disambiguation of gene symbols.

Bob J. A. Schijvenaars, Barend Mons, Marc Weeber, Martijn J. Schuemie, Erik M. van Mulligen, Hester M. Wain, Jan A. Kors

BMC Bioinform., 2005

Co-occurrence based meta-analysis of scientific texts: retrieving biological relationships between genes.

Rob Jelier, Guido Jenster, Lambert C. J. Dorssers, C. Christiaan van der Eijk, Erik M. van Mulligen, Barend Mons, Jan A. Kors

Bioinform., 2005

TREC 2005 Genomics Track A Concept-Based Approach to Text Categorization.

Bob J. A. Schijvenaars, Martijn J. Schuemie, Erik M. van Mulligen, Marc Weeber, Rob Jelier, Barend Mons, Jan A. Kors, Wessel Kraaij

Proceedings of the Fourteenth Text REtrieval Conference, 2005

Towards Mapping-Based Document Retrieval in Heterogeneous Digital Libraries.

Heiner Stuckenschmidt, Wolf Siberski, Erik M. van Mulligen

Proceedings of the Semantic Grid: The Convergence of Technologies, 3.-8. July 2005, 2005

2004

Constructing an associative concept space for literature-based discovery.

C. Christiaan van der Eijk, Erik M. van Mulligen, Jan A. Kors, Barend Mons, Jan van den Berg

J. Assoc. Inf. Sci. Technol., 2004

Exploring Large Document Repositories with RDF Technology: The DOPE Project.

Heiner Stuckenschmidt, Frank van Harmelen, Anita de Waard, Tony Scerri, Ravinder Bhogal, Jan van Buel, Ian Crowlesmith, Christiaan Fluit, Arjohn Kampman, Jeen Broekstra, Erik M. van Mulligen

IEEE Intell. Syst., 2004

Distribution of information in biomedical abstracts and full-text publications.

Martijn J. Schuemie, Marc Weeber, Bob J. A. Schijvenaars, Erik M. van Mulligen, C. Christiaan van der Eijk, Rob Jelier, Barend Mons, Jan A. Kors

Bioinform., 2004

The Drug Ontology Project for Elsevier - An RDF Architecture Enabling Thesaurus-Driven Data Integration.

Jeen Broekstra, Christiaan Fluit, Arjohn Kampman, Frank van Harmelen, Heiner Stuckenschmidt, Ravinder Bhogal, Antony Scerri, Anita de Waard, Erik M. van Mulligen

Proceedings of the WWW2004 Workshop on Application Design, 2004

Contextual Annotation of Web Pages for Interactive Browsing.

Erik M. van Mulligen, Mario Diwersy, Bob J. A. Schijvenaars, Marc Weeber, C. Christiaan van der Eijk, Rob Jelier, Martijn J. Schuemie, Jan A. Kors, Barend Mons

Proceedings of the MEDINFO 2004, 2004

A Topic-Based Browser for Large Online Resources.

Heiner Stuckenschmidt, Anita de Waard, Ravinder Bhogal, Christiaan Fluit, Arjohn Kampman, Jan van Buel, Erik M. van Mulligen, Jeen Broekstra, Ian Crowlesmith, Frank van Harmelen, Tony Scerri

Proceedings of the Engineering Knowledge in the Age of the Semantic Web, 2004

2003

Searching for geneRIFs: Concept-Based Query Expansion and Bayes Classification.

Rob Jelier, Martijn J. Schuemie, C. Christiaan van der Eijk, Marc Weeber, Erik M. van Mulligen, Bob J. A. Schijvenaars, Barend Mons, Jan A. Kors

Proceedings of The Twelfth Text REtrieval Conference, 2003

Ambiguity of Human Gene Symbols in LocusLink and MEDLINE: Creating an Inventory and a Disambiguation Test Collection.

Marc Weeber, Bob J. A. Schijvenaars, Erik M. van Mulligen, Barend Mons, Rob Jelier, C. Christiaan van der Eijk, Jan A. Kors

Proceedings of the AMIA 2003, 2003

Using Contextual Queries.

Bob J. A. Schijvenaars, Erik M. van Mulligen, Mario Diwersy, Marc Weeber, C. Christiaan van der Eijk, Rob Jelier, Jan A. Kors, Barend Mons

Proceedings of the AMIA 2003, 2003

Mining Microarray Datasets Aided by Knowledge Stored in Literature.

Rob Jelier, Guido Jenster, Lambert C. J. Dorssers, Erik M. van Mulligen, Barend Mons, Jan A. Kors

Proceedings of the AMIA 2003, 2003

2002

Research for research: tools for knowledge discovery and visualization.

Erik M. van Mulligen, C. Christiaan van der Eijk, Jan A. Kors, Bob J. A. Schijvenaars, Barend Mons

Proceedings of the AMIA 2002, 2002

2001

Architecture for Information Mediation.

Erik M. van Mulligen, Barend Mons, Martin Schmidt, Mario Diwersy, Achim Domma

Proceedings of the MEDINFO 2001, 2001

2000

Facilitating networks of information.

Erik M. van Mulligen, Mario Diwersy, Martin Schmidt, Henk Buurman, Barend Mons

Proceedings of the AMIA 2000, 2000

1999

UMLS-based access to CPR data.

Erik M. van Mulligen

Int. J. Medical Informatics, 1999

1998

Clinical data entry.

Erik M. van Mulligen, Henk J. Stam, Astrid M. van Ginneken

Proceedings of the AMIA 1998, 1998

1997

Can data representation and interface demands be reconciled? Approach in ORCA.

Astrid M. van Ginneken, Marcel de Wilde, Erik M. van Mulligen, Henk J. Stam

Proceedings of the AMIA 1997, 1997

1994

Routine Multiple Imputation in Statistical Databases.

Stef van Buuren, Erik M. van Mulligen, Jacob P. L. Brand

Proceedings of the Seventh International Working Conference on Scientific and Statistical Database Management, 1994