ArticleJournal of biomedical informatics2006
Inductive creation of an annotation schema for manually indexing clinical conditions from emergency department reports.
Article in Journal of biomedical informatics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- Lessons Learned for Identifying and Annotating Permissions in Clinical Consent Forms.Applied clinical informatics · 2021Article
- Clinical text annotation - what factors are associated with the cost of time?AMIA ... Annual Symposium proceedings. AMIA Symposium · 2018Article
- Design of an extensive information representation scheme for clinical narratives.Journal of biomedical semantics · 2017Article
- Automatic identification of heart failure diagnostic criteria, using text analysis of clinical notes from electronic health records.International journal of medical informatics · 2014Article
- Natural language processing of radiology reports for the detection of thromboembolic diseases and clinically relevant incidental findings.BMC bioinformatics · 2014Article
- A methodology for extending domain coverage in SemRep.Journal of biomedical informatics · 2013Article
- Semantic annotation of clinical events for generating a problem list.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2013Article
- Building gold standard corpora for medical natural language processing tasks.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2012Article
- A multi-site content analysis of social history information in clinical notes.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2011Article
- ConText: an algorithm for determining negation, experiencer, and temporal status from clinical reports.Journal of biomedical informatics · 2009Article
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Authors and funding
2 authors.
Funding
Abstract
Evaluating automated indexing applications requires comparing automatically indexed terms against manual reference standard annotations. However, there are no standard guidelines for determining which words from a textual document to include in manual annotations, and the vague task can result in substantial variation among manual indexers. We applied grounded theory to emergency department reports to create an annotation schema representing syntactic and semantic variables that could be annotated when indexing clinical conditions. We describe the annotation schema, which includes variables representing medical concepts (e.g., symptom, demographics), linguistic form (e.g., noun, adjective), and modifier types (e.g., anatomic location, severity). We measured the schema's quality and found: (1) the schema was comprehensive enough to be applied to 20 unseen reports without changes to the schema; (2) agreement between author annotators applying the schema was high, with an F measure of 93%; and (3) the authors made complementary errors when applying the schema, demonstrating that the schema incorporates both linguistic and medical expertise.
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