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

Authors: Hartendorp, Fons, Seinen, Tom, van Mulligen, Erik, Verberne, Suzan

Subject Terms: Computer Science - Computation and Language

Access URL: http://arxiv.org/abs/2405.11941

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

Authors: Seinen, Tom M, Kors, Jan A, van Mulligen, Erik M, Fridgeirsson, Egill A, Verhamme, Katia MC, Rijnbeek, Peter R

Source: In International Journal of Medical Informatics September 2024 189

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

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

Source: Journal of the American Medical Informatics Association. 29(7):1292-1302

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100155612131.0x000001&indx=1&recIds=ETOCvdc_100155612131.0x000001

Disproportionality Analysis and Characterisation of Medication Errors in EudraVigilance: Exploring Findings on Sexes and Age Groups: Medication Errors in Eudravigilance: V. Pera et al.

Authors: Pera, Victor, Kors, Jan A., van Mulligen, Erik M., de Wilde, Marcel, Rijnbeek, Peter R., Verhamme, Katia M. C.

Source: Drug Safety; Jan2025, Vol. 48 Issue 1, p59-74, 16p

Subject Terms: HERPES zoster vaccines, MEDICAL sciences, HUMAN papillomavirus vaccines, MEDICAL personnel, AGE groups

A Concept Annotation System for Clinical Records

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

Subject Terms: Computer Science - Information Retrieval, J.3

Access URL: http://arxiv.org/abs/1012.1663

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

Authors: Seinen, Tom M¹, t.seinen@erasmusmc.nl, Kors, Jan A¹, Mulligen, Erik M van¹, Rijnbeek, Peter R¹

Source: Journal of the American Medical Informatics Association; Aug2024, Vol. 31 Issue 8, p1725-1734, 10p

Drug prioritization using the semantic properties of a knowledge graph

Authors: Malas, Tareq, Vlietstra, Wytze, Kudrin, Roman, Starikov, Sergey, Charrout, Mohammed, Roos, Marco, Peters, Dorien, Kors, Jan, Vos, Rein, Hoen, Peter, Mulligen, Erik, Hettne, Kristina

Source: Scientific reports. 9(1):1-10

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100132431959.0x000001&indx=1&recIds=ETOCvdc_100132431959.0x000001

Automated extraction of potential migraine biomarkers using a semantic graph

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

Source: In Journal of Biomedical Informatics July 2017 71:178-189

Concept Recognition in French Biomedical Text Using Automatic Translation
Conference and labs of the evaluation forum Association

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

Source: Lecture notes in computer science. 9822:162-173

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCCN601627721&indx=1&recIds=ETOCCN601627721

SEMCARE: Multilingual Semantic Search in Semi-Structured Clinical Data
eHealth (Conference)

Authors: López-García, Pablo, Kreuzthaler, Markus, Schulz, Stefan, Scherr, Daniel, Daumke, Philipp, Markó, Kornél, Kors, Jan A., van Mulligen, Erik M., Wang, Xinkai, Gonna, Hanney

Source: Studies in health technology and informatics. 223:93-99

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCCN601585441&indx=1&recIds=ETOCCN601585441

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

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

Source: BMC bioinformatics. 19(1):1-11

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100165300395.0x000001&indx=1&recIds=ETOCvdc_100165300395.0x000001

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

Authors: Vlietstra, Wytze, Vos, Rein, Sijbers, Anneke, van Mulligen, Erik, Kors, Jan

Source: Journal of biomedical semantics. 9(1):1-10

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100179709028.0x000001&indx=1&recIds=ETOCvdc_100179709028.0x000001

Evaluation of a multinational, multilingual vaccine debate on Twitter

Authors: Becker, Benedikt F.H., Larson, Heidi J., Bonhoeffer, Jan, van Mulligen, Erik M., Kors, Jan A., Sturkenboom, Miriam C.J.M.

Source: In Vaccine 7 December 2016 34(50):6166-6171

Descriptive analysis on disproportionate medication errors and associated patient characteristics in the Food and Drug Administration's Adverse Event Reporting System.

Authors: Pera, Victor, van Vaerenbergh, Frauke, Kors, Jan A., van Mulligen, Erik M., Parry, Rowan, de Wilde, Marcel, Lahousse, Lies, van der Lei, Johan, Rijnbeek, Peter R., Verhamme, Katia M. C.

Source: Pharmacoepidemiology & Drug Safety; Jan2024, Vol. 33 Issue 1, p1-10, 10p

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

Authors: Seinen, Tom M¹, t.seinen@erasmusmc.nl, Kors, Jan A¹, Mulligen, Erik M van¹, Fridgeirsson, Egill¹, Rijnbeek, Peter R¹

Source: Journal of the American Medical Informatics Association; Dec2023, Vol. 30 Issue 12, p1973-1984, 12p

Parasitic infections related to anti-type 2 immunity monoclonal antibodies: a disproportionality analysis in the food and drug administration's adverse event reporting system (FAERS).

Authors: Pera, Victor, Brusselle, Guy G., Riemann, Sebastian, Kors, Jan A., Van Mulligen, Erik M., Parry, Rowan, de Wilde, Marcel, Rijnbeek, Peter R., Verhamme, Katia M. C.

Source: Frontiers in Pharmacology; 2023, p1-9, 9p

Subject Terms: PARASITIC diseases, MONOCLONAL antibodies, FOOD chemistry, IMMUNOGLOBULIN E, DRUG analysis, HELMINTHIASIS

Company/Entity: UNITED States. Food & Drug Administration

Identifying disease trajectories with predicate information from a knowledge graph

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

Source: Journal of biomedical semantics. 11(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100172265245.0x000001&indx=1&recIds=ETOCvdc_100172265245.0x000001

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

Authors: van Mulligen, Erik M., Fourrier-Reglat, Annie, Gurwitz, David, Molokhia, Mariam, Nieto, Ainhoa, Trifiro, Gianluca, Kors, Jan A., Furlong, Laura I.

Source: In Journal of Biomedical Informatics October 2012 45(5):879-884

Using an ensemble system to improve concept extraction from clinical records

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

Source: In Journal of Biomedical Informatics June 2012 45(3):423-428

Comparing and combining chunkers of biomedical text

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

Source: In Journal of Biomedical Informatics April 2011 44(2):354-360