Background: The structured recording of data from histopathological findings and their interoperability is critical for quality assurance in pathology.
Materials And Methods: To harmonize the content of the reports, the International Collaboration on Cancer Reporting (ICCR) has defined standardized datasets. These datasets are not yet available in German nationwide. This gap is addressed here using the transurethral bladder resection (TUR-B) dataset as a use case.
Results: We describe the process of establishing the datasets by carrying out translation, mapping on SNOMED CT codes, and using SNOMED CTs hierarchy to fill dropdown menus. Furthermore, we identified rules for checking for self-consistency of reports by using the example of the TUR bladder.
Discussion: With this article, we have created an example of a German version of the ICCR TUR‑B dataset including mapping to the SNOMED CT terminology. Further activities should include the definition of overarching cancer disease models to further exploit the potential of SNOMED CT.
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http://dx.doi.org/10.1007/s00292-024-01398-3 | DOI Listing |
Comput Methods Programs Biomed
January 2025
Laberit, Avda. de Catalunya, 9, València, 46020, Spain.
Background And Objective: Despite significant investments in the normalization and the standardization of Electronic Health Records (EHRs), free text is still the rule rather than the exception in clinical notes. The use of free text has implications in data reuse methods used for supporting clinical research since the query mechanisms used in cohort definition and patient matching are mainly based on structured data and clinical terminologies. This study aims to develop a method for the secondary use of clinical text by: (a) using Natural Language Processing (NLP) for tagging clinical notes with biomedical terminology; and (b) designing an ontology that maps and classifies all the identified tags to various terminologies and allows for running phenotyping queries.
View Article and Find Full Text PDFJ Biomed Inform
January 2025
Objective: Medical laboratory data together with prescribing and hospitalisation records are three of the most used electronic health records (EHRs) for data-driven health research. In Scotland, hospitalisation, prescribing and the death register data are available nationally whereas laboratory data is captured, stored and reported from local health board systems with significant heterogeneity. For researchers or other users of this regionally curated data, working on laboratory datasets across regional cohorts requires effort and time.
View Article and Find Full Text PDFPathologie (Heidelb)
December 2024
Institut für Pathologie, Uniklinik RWTH Aachen, Pauwelsstraße 30, 52074, Aachen, Deutschland.
Background: The structured recording of data from histopathological findings and their interoperability is critical for quality assurance in pathology.
Materials And Methods: To harmonize the content of the reports, the International Collaboration on Cancer Reporting (ICCR) has defined standardized datasets. These datasets are not yet available in German nationwide.
BMC Med Inform Decis Mak
December 2024
Barts Cancer Centre, Barts Health NHS Trust, London, UK.
Background: The digitisation of healthcare records has generated vast amounts of unstructured data, presenting opportunities for improvements in disease diagnosis when clinical coding falls short, such as in the recording of patient symptoms. This study presents an approach using natural language processing to extract clinical concepts from free-text which are used to automatically form diagnostic criteria for lung cancer from unstructured secondary-care data.
Methods: Patients aged 40 and above who underwent a chest x-ray (CXR) between 2016 and 2022 were included.
Int J Med Inform
November 2024
Department of Healthcare Information Management, The University of Tokyo Hospital, Tokyo, Japan; Department of Biomedical Informatics, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
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