GGPONC 2.3 (Minor Release with Silver Standard Annotations)
Authors/Creators
Description
About this Release
Version 2.3 (minor release) contains more recent oncology guidelines (XML, plain text), metadata, and predictions using GGPONC 2.0 NER models and UMLS concepts identified with xMEN.
In total, this version contains 34 guidelines with 2.3M tokens of text.
⚠️ If you are looking for the GGPONC 2.0 gold standard annotations, please refer to the major release: https://zenodo.org/records/12518458
Project Description
The GGPONC project aims to provide a freely distributable corpus of German medical text for NLP researchers. Clinical guidelines are particularly suitable to create such corpora, as they contain no protected health information (PHI), which distinguishes them from other kinds of medical text.
The second version of the corpus (GGPONC 2.0) consists of 30 German oncology guidelines with 1.87 million tokens. It has been completely manually annotated on the entity level by 7 medical students using the INCEpTION platform over a time frame of 6 months in more than 1200 hours of work. This makes GGPONC 2.0 the largest annotated, freely distributable corpus of German medical text at the moment.
Annotated entities are Findings (Diagnosis / Pathology, Other Finding), Substances (Clinical Drug, Nutrients / Body Substances, External Substances) and Procedures (Therapeutic, Diagnostic), as well as Specifications for these entities. In total, annotators have created more than 200000 entity annotations. In addition, fragment relationships have been annotated to explicitly indicate elliptical coordinated noun phrases, a common phenomenon in German text.
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Instructions
Please describe your research project briefly to gain access to GGPONC.
Terms of Use
- GGPONC may be used for non-commercial research activities only.
- GGPONC may not be distributed by the corpus users to any other third party (including any project collaborators). All prospective users of the corpus must apply for access individually.
- The copyright of the corpus is protected in all parts. Any use outside of the Copyright Protection Law is not allowed and illegal without written permit of the German Guideline Program in Oncology (GGPO). No part of the corpus may be reproduced in any form without prior written permission of the GGPO.
- GGPONC is provided free of charge.
- The corpus comes with absolutely no warranties including (but not limited to) the correctness of the information provided in the text corpus itself. The latest version of the clinical guidelines used for the corpus can be found at: https://www.leitlinienprogramm-onkologie.de/english-language/
- Contributions which are based on the corpus must cite the following publication:
- Florian Borchert, Christina Lohr, Luise Modersohn, Jonas Witt, Thomas Langer, Markus Follmann, Matthias Gietzelt, Bert Arnrich, Udo Hahn, and Matthieu-P. Schapranow. 2022. GGPONC 2.0 - The German Clinical Guideline Corpus for Oncology: Curation Workflow, Annotation Policy, Baseline NER Taggers. In Proceedings of the Thirteenth Language Resources and Evaluation Conference, pages 3650–3660, Marseille, France. European Language Resources Association.“
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Additional details
Related works
- Is new version of
- Dataset: 10.5281/zenodo.12518457 (DOI)
Dates
- Available
-
2024-06-18
Software
- Repository URL
- https://github.com/hpi-dhc/ggponc
- Development Status
- Active