GGPONC: A Corpus of German Medical Text with Rich Metadata Based on Clinical Practice Guidelines. - Florian Borchert; Christina Lohr; Luise Modersohn; Thomas Langer; Markus Follmann; Jan-Philipp Sachs; Udo Hahn; Matthieu-P. Schapranow (LOUHI@EMNLP, 2020)

Controversial Trials First: Identifying Disagreement Between Clinical Guidelines and New Evidence. - Florian Borchert; Laura Meister; Thomas Langer; Markus Follmann; Bert Arnrich; Matthieu-P. Schapranow (AMIA, 2021)

A Comparison of Concept Embeddings for German Clinical Corpora. - Aadil Rasheed; Florian Borchert; Lasse Kohlmeyer; Richard Henkenjohann; Matthieu-P. Schapranow (BIBM, 2021)

An Engineering Approach Towards Multi-site Virtual Molecular Tumor Board Software. - Richard Henkenjohann; Benjamin Bergner; Florian Borchert; Nina Bougatf; Hauke Hund; Roland Eils; Matthieu-P. Schapranow (IHAW, 2021)

Knowledge bases and software support for variant interpretation in precision oncology. - Florian Borchert; Andreas Mock; Aurelie Tomczak; Jonas Hügel; Samer Alkarkoukly; Alexander Knurr; Anna-Lena Volckmar; Albrecht Stenzinger; Peter Schirmacher; Jürgen Debus; Dirk Jäger; Thomas Longerich; et al. (Briefings Bioinform., 2021)

HPI-DHC @ BioASQ DisTEMIST: Spanish Biomedical Entity Linking with Pre-trained Transformers and Cross-lingual Candidate Retrieval. - Florian Borchert; Matthieu-P. Schapranow (CLEF (Working Notes), 2022)

GGPONC 2.0 - The German Clinical Guideline Corpus for Oncology: Curation Workflow, Annotation Policy, Baseline NER Taggers. - Florian Borchert; Christina Lohr; Luise Modersohn; Jonas Witt; Thomas Langer; Markus Follmann; Matthias Gietzelt; Bert Arnrich; Udo Hahn; Matthieu-P. Schapranow (LREC, 2022)

A Meta-dataset of German Medical Corpora: Harmonization of Annotations and Cross-corpus NER Evaluation. - Ignacio Llorca; Florian Borchert; Matthieu-P. Schapranow (ClinicalNLP@ACL, 2023)

Machine Learning Based Prediction of Incident Cases of Crohn's Disease Using Electronic Health Records from a Large Integrated Health System. - Julian Hugo; Susanne Ibing; Florian Borchert; Jan-Philipp Sachs; Judy Cho; Ryan C. Ungaro; Erwin P. Böttinger (AIME, 2023)

GGTWEAK: Gene Tagging with Weak Supervision for German Clinical Text. - Sandro Steinwand; Florian Borchert; Silvia Winkler; Matthieu-P. Schapranow (AIME, 2023)

Resolving Elliptical Compounds in German Medical Text. - Niklas Kammer; Florian Borchert; Silvia Winkler; Gerard de Melo; Matthieu-P. Schapranow (BioNLP@ACL, 2023)

Cross-Lingual Candidate Retrieval and Re-ranking for Biomedical Entity Linking. - Florian Borchert; Ignacio Llorca; Matthieu-P. Schapranow (CLEF, 2023)

HPIDHC at NTCIR-17 MedNLP-SC: Data Augmentation and Ensemble Learning for Multilingual Adverse Drug Event Detection. - Smilla Fox; Martin Preiß; Florian Borchert; Aadil Rasheed; Matthieu-P. Schapranow (NTCIR, 2023)

xMEN: A Modular Toolkit for Cross-Lingual Medical Entity Normalization. - Florian Borchert; Ignacio Llorca; Roland Roller; Bert Arnrich; Matthieu-P. Schapranow (CoRR, 2023)

Understanding emotions in the context of IT-based self-monitoring. - Danielly F. O. de Paula; Florian Borchert; Ariane Sasso; Falk Uebernickel (CoRR, 2023)

Programming techniques for improving rule readability for rule-based information extraction natural language processing pipelines of unstructured and semi-structured medical texts. - Nektarios Ladas; Florian Borchert; Stefan Franz; Alina Rehberg; Natalia Strauch; Kim Katrin Sommer; Michael Marschollek; Matthias Gietzelt (Health Informatics J., 2023)

Software-Tool Support for Collaborative, Virtual, Multi-Site Molecular Tumor Boards. - Matthieu-P. Schapranow; Florian Borchert; Nina Bougatf; Hauke Hund; Roland Eils (SN Comput. Sci., 2023)

Improving biomedical entity linking for complex entity mentions with LLM-based text simplification. - Florian Borchert; Ignacio Llorca; Matthieu-P. Schapranow (Database J. Biol. Databases Curation, 2024)

medBERT.de: A comprehensive German BERT model for the medical domain. - Keno K. Bressem; Jens-Michalis Papaioannou; Paul Grundmann; Florian Borchert; Lisa C. Adams; Leonhard Liu; Felix Busch; Lina Xu; Jan P. Loyen; Stefan Markus Niehues; Moritz Augustin; Lennart Grosser; et al. (Expert Syst. Appl., 2024)

Electronic Health Records-based identification of newly diagnosed Crohn's Disease cases. - Susanne Ibing; Julian Hugo; Florian Borchert; Linea Schmidt; Caroline Benson; Allison A. Marshall; Colleen Chasteau; Ujunwa Korie; Diana Paguay; Jan-Philipp Sachs; Bernhard Y. Renard; Judy H. Cho; et al. (Artif. Intell. Medicine, 2025)

High-precision information retrieval for rapid clinical guideline updates. - Florian Borchert; Paul Wullenweber; Annika Oeser; Nina Kreuzberger; Torsten Karge; Thomas Langer; Nicole Skoetz; Lothar H. Wieler; Matthieu-P. Schapranow; Bert Arnrich (npj Digit. Medicine, 2025)