Erik M. van Mulligen

Publication Activity (10 Years)

Years Active: 1997-2024
Publications (10 Years): 19

Top Topics

Web Technologies

Biomedical Text

Semantic Search

Top Venues

J. Am. Medical Informatics Assoc.

J. Biomed. Semant.

Publications

Tom M. Seinen, Jan A. Kors, Erik M. van Mulligen, Egill A. Fridgeirsson, Katia M. C. Verhamme, Peter R. Rijnbeek
Using clinical text to refine unspecific condition codes in Dutch general practitioner EHR data. Int. J. Medical Informatics 189 (2024)
Fons Hartendorp, Tom M. Seinen, Erik M. van Mulligen, Suzan Verberne
Biomedical Entity Linking for Dutch: Fine-tuning a Self-alignment BERT Model on an Automatically Generated Wikipedia Corpus. CoRR (2024)
Tom M. Seinen, Jan A. Kors, Erik M. van Mulligen, Peter R. Rijnbeek
Annotation-preserving machine translation of English corpora to validate Dutch clinical concept extraction tools. J. Am. Medical Informatics Assoc. 31 (8) (2024)
Tom M. Seinen, Jan A Kors, Erik M. van Mulligen, Egill Fridgeirsson, Peter R. Rijnbeek
The added value of text from Dutch general practitioner notes in predictive modeling. J. Am. Medical Informatics Assoc. 30 (12) (2023)
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
Use of unstructured text in prognostic clinical prediction models: a systematic review. J. Am. Medical Informatics Assoc. 29 (7) (2022)
Wytze J. Vlietstra, Rein Vos, Marjan van den Akker, Erik M. van Mulligen, Jan A. Kors
Identifying disease trajectories with predicate information from a knowledge graph. J. Biomed. Semant. 11 (1) (2020)
Wytze Vlietstra, Rein Vos, Erik M. van Mulligen, Jan A. Kors
Using Predicate Information from a Knowledge Graph to Identify Disease Trajectories. AAAI Spring Symposium: Combining Machine Learning with Knowledge Engineering (2019)
Gurnoor Singh, Arnold Kuzniar, Erik M. van Mulligen, Anand Gavai, Christian W. Bachem, Richard G. F. Visser, Richard Finkers
QTLTableMiner++: semantic mining of QTL tables in scientific articles. BMC Bioinform. 19 (1) (2018)
Wytze J. Vlietstra, Rein Vos, Anneke M. Sijbers, Erik M. van Mulligen, Jan A. Kors
Using predicate and provenance information from a knowledge graph for drug efficacy screening. J. Biomed. Semant. 9 (1) (2018)
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
Interoperability and FAIRness through a novel combination of Web technologies. PeerJ Prepr. 5 (2017)
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
Interoperability and FAIRness through a novel combination of Web technologies. PeerJ Comput. Sci. 3 (2017)
Wytze J. Vlietstra, Ronald Zielman, Robin M. van Dongen, Erik A. Schultes, Floris Wiesman, Rein Vos, Erik M. van Mulligen, Jan A. Kors
Automated extraction of potential migraine biomarkers using a semantic graph. J. Biomed. Informatics 71 (2017)
Erik M. van Mulligen, Wytze Vlietstra, Rein Vos, Jan A. Kors
Discovering Information from an Integrated Graph Database. SWAT4LS (2016)
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
SEMCARE: Multilingual Semantic Search in Semi-Structured Clinical Data. eHealth (2016)
Zubair Afzal, Saber A. Akhondi, Herman H. H. B. M. van Haagen, Erik M. van Mulligen, Jan A. Kors
Concept Recognition in French Biomedical Text Using Automatic Translation. CLEF (2016)
Erik M. van Mulligen, Zubair Afzal, Saber A. Akhondi, Dang Vo, Jan A. Kors
Erasmus MC at CLEF eHealth 2016: Concept Recognition and Coding in French Texts. CLEF (Working Notes) (2016)
Saber A. Akhondi, Ewoud Pons, Zubair Afzal, Herman van Haagen, Benedikt F. H. Becker, Kristina M. Hettne, Erik M. van Mulligen, Jan A. Kors
Chemical entity recognition in patents by combining dictionary-based and statistical approaches. Database J. Biol. Databases Curation 2016 (2016)
Ewoud Pons, Benedikt F. H. Becker, Saber A. Akhondi, Zubair Afzal, Erik M. van Mulligen, Jan A. Kors
Extraction of chemical-induced diseases using prior knowledge and textual information. Database J. Biol. Databases Curation 2016 (2016)
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
Interoperability and FAIRness through a novel combination of Web technologies. PeerJ Prepr. 4 (2016)
Erik M. van Mulligen, Wytze Vlietstra, Rein Vos, Jan A. Kors
Information from Semantic Integration of Texts and Databases. SWAT4LS (2015)
Jan A. Kors, Simon Clematide, Saber A. Akhondi, Erik M. van Mulligen, Dietrich Rebholz-Schuhmann
A multilingual gold-standard corpus for biomedical concept recognition: the Mantra GSC. J. Am. Medical Informatics Assoc. 22 (5) (2015)
Saber A. Akhondi, Kristina M. Hettne, Eelke van der Horst, Erik M. van Mulligen, Jan A. Kors
Recognition of chemical entities: combining dictionary-based and grammar-based approaches. J. Cheminformatics 7 (S-1) (2015)
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
SEMCARE - Semantic Data Platform for Healthcare. AMIA (2015)
Zubair Afzal, Saber A. Akhondi, Herman van Haagen, Erik M. van Mulligen, Jan A. Kors
Biomedical Concept Recognition in French Text Using Automatic Translation of English Terms. CLEF (Working Notes) (2015)
Rein Vos, Sil Aarts, Erik M. van Mulligen, Job Metsemakers, Martin P. van Boxtel, Frans Verhey, Marjan van den Akker
Finding potentially new multimorbidity patterns of psychiatric and somatic diseases: exploring the use of literature-based discovery in primary care research. J. Am. Medical Informatics Assoc. 21 (1) (2014)
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
Explain your data by Concept Profile Analysis Web Services. F1000Research 3 (2014)
Quoc-Chinh Bui, Peter M. A. Sloot, Erik M. van Mulligen, Jan A. Kors
A novel feature-based approach to extract drug-drug interactions from biomedical text. Bioinform. 30 (23) (2014)
Ning Kang, Bharat Singh, Quoc-Chinh Bui, Zubair Afzal, Erik M. van Mulligen, Jan A. Kors
Knowledge-based extraction of adverse drug events from biomedical text. BMC Bioinform. 15 (2014)
Quoc-Chinh Bui, David Campos, Erik M. van Mulligen, Jan A. Kors
A fast rule-based approach for biomedical event extraction. BioNLP@ACL (Shared Task) (2013)
Ning Kang, Bharat Singh, Zubair Afzal, Erik M. van Mulligen, Jan A. Kors
Using rule-based natural language processing to improve disease normalization in biomedical text. J. Am. Medical Informatics Assoc. 20 (5) (2013)
Erik M. van Mulligen, Quoc-Chinh Bui, Jan A. Kors
Machine Translation of Bio-Thesauri. CLEF (Working Notes) (2013)
Jan A. Kors, Simon Clematide, Saber A. Akhondi, Erik M. van Mulligen, Dietrich Rebholz-Schuhmann
Creating Multilingual Gold Standard Corpora for Biomedical Concept Recognition. CLEF (Working Notes) (2013)
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
Multilingual Semantic Resources and Parallel Corpora in the Biomedical Domain: the CLEF-ER Challenge. CLEF (Working Notes) (2013)
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
Entity Recognition in Parallel Multi-lingual Biomedical Corpora: The CLEF-ER Laboratory Overview. CLEF (2013)
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
Automatic Filtering and Substantiation of Drug Safety Signals. PLoS Comput. Biol. 8 (4) (2012)
Ning Kang, Erik M. van Mulligen, Jan A. Kors
Training text chunkers on a silver standard corpus: can silver replace gold? BMC Bioinform. 13 (2012)
Ning Kang, Zubair Afzal, Bharat Singh, Erik M. van Mulligen, Jan A. Kors
Using an ensemble system to improve concept extraction from clinical records. J. Biomed. Informatics 45 (3) (2012)
Senay Kafkas, Ian Lewin, David Milward, Erik M. van Mulligen, Jan A. Kors, Udo Hahn, Dietrich Rebholz-Schuhmann
CALBC: Releasing the Final Corpora. LREC (2012)
Erik M. van Mulligen, Annie Fourrier-Réglat, David Gurwitz, Mariam Molokhia, Ainhoa Nieto, Gianluca Trifirò, Jan A. Kors, Laura Inés Furlong
The EU-ADR corpus: Annotated drugs, diseases, targets, and their relationships. J. Biomed. Informatics 45 (5) (2012)
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
Assessment of NER solutions against the first and second CALBC Silver Standard Corpus. J. Biomed. Semant. 2 (S-5) (2011)
Ning Kang, Erik M. van Mulligen, Jan A. Kors
Comparing and combining chunkers of biomedical text. J. Biomed. Informatics 44 (2) (2011)
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
Assessment of NER solutions against the first and second CALBC silver standard corpus. Semantic Mining in Biomedicine (2010)
Kristina M. Hettne, Antony J. Williams, Erik M. van Mulligen, Jos Kleinjans, Valery Tkachenko, Jan A. Kors
Automatic vs. manual curation of a multi-source chemical dictionary: the impact on text mining. J. Cheminformatics 2 (2010)
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
Calbc Silver Standard Corpus. J. Bioinform. Comput. Biol. 8 (1) (2010)
Ning Kang, Rogier Barendse, Zubair Afzal, Bharat Singh, Martijn J. Schuemie, Erik M. van Mulligen, Jan A. Kors
A Concept Annotation System for Clinical Records. SWAT4LS (2010)
Kristina M. Hettne, Erik M. van Mulligen, Martijn J. Schuemie, Bob J. A. Schijvenaars, Jan A. Kors
Rewriting and suppressing UMLS terms for improved biomedical term identification. J. Biomed. Semant. 1 (2010)
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
The CALBC Silver Standard Corpus for Biomedical Named Entities - A Study in Harmonizing the Contributions from Four Independent Named Entity Taggers. LREC (2010)
Kristina M. Hettne, Antony J. Williams, Erik M. van Mulligen, Jos Kleinjans, Valery Tkachenko, Jan A. Kors
Automatic vs. manual curation of a multi-source chemical dictionary: the impact on text mining (Correction). J. Cheminformatics 2 (2010)
Ning Kang, Rogier Barendse, Zubair Afzal, Bharat Singh, Martijn J. Schuemie, Erik M. van Mulligen, Jan A. Kors
A Concept Annotation System for Clinical Records CoRR (2010)
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
A dictionary to identify small molecules and drugs in free text. Bioinform. 25 (22) (2009)
Stefan Schulz, Elena Beisswanger, László van den Hoek, Olivier Bodenreider, Erik M. van Mulligen
Alignment of the UMLS semantic network with BioTop: methodology and assessment. Bioinform. 25 (12) (2009)
Holger Stenzhorn, Stefan Schulz, Elena Beisswanger, Udo Hahn, László van den Hoek, Erik M. van Mulligen
BioTop and ChemTop - Top-Domain Ontologies for Biology and Chemistry. ISWC (Posters & Demos) (2008)
Rob Jelier, Martijn J. Schuemie, Peter-Jan Roes, Erik M. van Mulligen, Jan A. Kors
Literature-based concept profiles for gene annotation: The issue of weighting. Int. J. Medical Informatics 77 (5) (2008)
Erik M. van Mulligen, Montserrat Cases, Kristina M. Hettne, Eva Molero, Marc Weeber, Kevin A. Robertson, Baldomero Oliva, Guillermo de la Calle, Victor Maojo
Model Formulation: Training Multidisciplinary Biomedical Informatics Students: Three Years of Experience. J. Am. Medical Informatics Assoc. 15 (2) (2008)
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
Medical Informatics and Bioinformatics: A Bibliometric Study. IEEE Trans. Inf. Technol. Biomed. 11 (3) (2007)
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
SYMBIOmatics: Synergies in Medical Informatics and Bioinformatics - exploring current scientific literature for emerging topics. BMC Bioinform. 8 (S-1) (2007)
Erik M. van Mulligen, Erik Möller, Peter-Jan Roes, Marc Weeber, Gerard Meijssen, Barend Mons
An Online Ontology: WiktionaryZ. KR-MED (2006)
Jan H. van Bemmel, Erik M. van Mulligen, Barend Mons, Mark A. van Wijk, Jan A. Kors, Johan van der Lei
Databases for knowledge discovery: Examples from biomedicine and health care. Int. J. Medical Informatics 75 (3-4) (2006)
Rob Jelier, Guido Jenster, Lambert C. J. Dorssers, C. Christiaan van der Eijk, Erik M. van Mulligen, Barend Mons, Jan A. Kors
Co-occurrence based meta-analysis of scientific texts: retrieving biological relationships between genes. Bioinform. 21 (9) (2005)
Bob J. A. Schijvenaars, Martijn J. Schuemie, Erik M. van Mulligen, Marc Weeber, Rob Jelier, Barend Mons, Jan A. Kors, Wessel Kraaij
TREC 2005 Genomics Track A Concept-Based Approach to Text Categorization. TREC (2005)
Heiner Stuckenschmidt, Wolf Siberski, Erik M. van Mulligen
Towards Mapping-Based Document Retrieval in Heterogeneous Digital Libraries. Semantic Grid (2005)
Bob J. A. Schijvenaars, Barend Mons, Marc Weeber, Martijn J. Schuemie, Erik M. van Mulligen, Hester M. Wain, Jan A. Kors
Thesaurus-based disambiguation of gene symbols. BMC Bioinform. 6 (2005)
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
Contextual Annotation of Web Pages for Interactive Browsing. MedInfo (2004)
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
Distribution of information in biomedical abstracts and full-text publications. Bioinform. 20 (16) (2004)
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
A Topic-Based Browser for Large Online Resources. EKAW (2004)
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
Exploring Large Document Repositories with RDF Technology: The DOPE Project. IEEE Intell. Syst. 19 (3) (2004)
C. Christiaan van der Eijk, Erik M. van Mulligen, Jan A. Kors, Barend Mons, Jan van den Berg
Constructing an associative concept space for literature-based discovery. J. Assoc. Inf. Sci. Technol. 55 (5) (2004)
Jeen Broekstra, Christiaan Fluit, Arjohn Kampman, Frank van Harmelen, Heiner Stuckenschmidt, Ravinder Bhogal, Antony Scerri, Anita de Waard, Erik M. van Mulligen
The Drug Ontology Project for Elsevier - An RDF Architecture Enabling Thesaurus-Driven Data Integration. WWW Workshop on Application Design, Development and Implementation Issues in the Semantic Web (2004)
Rob Jelier, Guido Jenster, Lambert C. J. Dorssers, Erik M. van Mulligen, Barend Mons, Jan A. Kors
Mining Microarray Datasets Aided by Knowledge Stored in Literature. AMIA (2003)
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
Searching for geneRIFs: Concept-Based Query Expansion and Bayes Classification. TREC (2003)
Bob J. A. Schijvenaars, Erik M. van Mulligen, Mario Diwersy, Marc Weeber, C. Christiaan van der Eijk, Rob Jelier, Jan A. Kors, Barend Mons
Using Contextual Queries. AMIA (2003)
Marc Weeber, Bob J. A. Schijvenaars, Erik M. van Mulligen, Barend Mons, Rob Jelier, C. Christiaan van der Eijk, Jan A. Kors
Ambiguity of Human Gene Symbols in LocusLink and MEDLINE: Creating an Inventory and a Disambiguation Test Collection. AMIA (2003)
Erik M. van Mulligen, C. Christiaan van der Eijk, Jan A. Kors, Bob J. A. Schijvenaars, Barend Mons
Research for research: tools for knowledge discovery and visualization. AMIA (2002)
Erik M. van Mulligen, Barend Mons, Martin Schmidt, Mario Diwersy, Achim Domma
Architecture for Information Mediation. MedInfo (2001)
Erik M. van Mulligen, Mario Diwersy, Martin Schmidt, Henk Buurman, Barend Mons
Facilitating networks of information. AMIA (2000)
Erik M. van Mulligen
UMLS-based access to CPR data. Int. J. Medical Informatics 53 (2-3) (1999)
Erik M. van Mulligen
UMLS-based Access to CPR Data. MedInfo (1998)
Erik M. van Mulligen, Henk J. Stam, Astrid M. van Ginneken
Clinical data entry. AMIA (1998)
Astrid M. van Ginneken, Marcel de Wilde, Erik M. van Mulligen, Henk J. Stam
Can data representation and interface demands be reconciled? Approach in ORCA. AMIA (1997)