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The CLEF corpus: semantic annotation of clinical text.

Roberts, A; Gaizauskas, R; Hepple, M; Davis, N; Demetriou, G; Guo, Y; ... Wheeldin, B; + view all (2007) The CLEF corpus: semantic annotation of clinical text. AMIA Annu Symp Proc 625 - 629.

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Abstract

The Clinical E-Science Framework (CLEF) project is building a framework for the capture, integration and presentation of clinical information: for clinical research, evidence-based health care and genotype-meets-phenotype informatics. A significant portion of the information required by such a framework originates as text, even in EHR-savvy organizations. CLEF uses Information Extraction (IE) to make this unstructured information available. An important part of IE is the identification of semantic entities and relationships. Typical approaches require human annotated documents to provide both evaluation standards and material for system development. CLEF has a corpus of clinical narratives, histopathology reports and imaging reports from 20 thousand patients. We describe the selection of a subset of this corpus for manual annotation of clinical entities and relationships. We describe an annotation methodology and report encouraging initial results of inter-annotator agreement. Comparisons are made between different text sub-genres, and between annotators with different skills.

Type:Article
Title:The CLEF corpus: semantic annotation of clinical text.
Location:United States
Language:English
Additional information:PMCID: PMC2655900
Keywords:Humans, Information Storage and Retrieval, Medical Records Systems, Computerized, Natural Language Processing, Semantics
UCL classification:UCL > School of Life and Medical Sciences > Faculty of Population Health Sciences > Institute of Epidemiology and Health Care > CHIME

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