Medizinische Universität Graz - Research portal
Selected Publication:
SHR Neuro Cancer Cardio Lipid Metab Microb
Grundel, B; Bernardeau, MA; Langner, H; Schmidt, C; Böhringer, D; Ritter, M; Rosenthal, P; Grandjean, A; Schulz, S; Daumke, P; Stahl, A.
[Extraction of features from clinical routine data using text mining].
Ophthalmologe. 2021; 118(3):264-272
Doi: 10.1007/s00347-020-01177-4
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PubMed
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- Co-authors Med Uni Graz
- Schulz Stefan
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- Abstract:
- BACKGROUND: Anti-VEGF drugs are currently used to treat macular diseases. This has led to a wealth of additional data, which could help understand and predict treatment courses; however, this information is usually only available in free text form. OBJECTIVE: A retrospective study was designed to analyze how far interpretable information can be obtained from clinical texts by automated extraction. The aim was to assess the suitability of a text mining method that was customized for this purpose. MATERIAL AND METHODS: Data on 3683 patients were available, including 40,485 discharge letters. Some of the data of interest, e.g. visual acuity (VA), intraocular pressure (IOP) and accompanying diagnoses, were not only recorded textually but also entered in a database and could thus serve as a gold standard for text analysis. The text was analyzed using the Averbis Health Discovery text mining platform. To optimize the extraction task, rule knowledge and a German language technical vocabulary linked to the international medical terminology standard systematized nomenclature of medicine (SNOMED CT) was manually added. RESULTS: The correspondence between extracted data and the structured database entries is described by the F1 value. There was agreement of 94.7% for VA, 98.3% for IOP and 94.7% for the accompanying diagnoses. Manual analysis of noncorresponding cases showed that in 50% text content did not match the database content for various reasons. After an adjustment, F1 values 1-3% above the previously determined values were obtained. CONCLUSION: Text mining procedures are very well suited for the considered discharge letter corpus and the problem described in order to extract contents from clinical texts in a structured manner for further evaluation.
- Find related publications in this database (using NLM MeSH Indexing)
- Data Mining - administration & dosage
- Databases, Factual - administration & dosage
- Electronic Health Records - administration & dosage
- Humans - administration & dosage
- Intraocular Pressure - administration & dosage
- Retrospective Studies - administration & dosage
- Systematized Nomenclature of Medicine - administration & dosage
- Find related publications in this database (Keywords)
- Macular degeneration
- Natural language processing
- Systematized nomenclature of medicine
- Electronic health records
- Decision support systems