ArticleAMIA ... Annual Symposium proceedings. AMIA Symposium2005
Comparing natural language processing tools to extract medical problems from narrative text.
Article in AMIA ... Annual Symposium proceedings. AMIA Symposium, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers, 1 of them a synthesis that pooled it.
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Who cites it
20 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Electronic problem lists: a thematic analysis of a systematic literature review to identify aspects critical to success.Journal of the American Medical Informatics Association : JAMIA · 2018Pooled it
- Building a Shared, Scalable, and Sustainable Source for the Problem-Oriented Medical Record: Developmental Study.JMIR medical informatics · 2021Article
- Text Mining and Automation for Processing of Patient Referrals.Applied clinical informatics · 2018Article
- Leveraging Electronic Health Care Record Information to Measure Pressure Ulcer Risk in Veterans With Spinal Cord Injury: A Longitudinal Study Protocol.JMIR research protocols · 2017Article
- The Use of Evidence-Based, Problem-Oriented Templates as a Clinical Decision Support in an Inpatient Electronic Health Record System.Applied clinical informatics · 2016Article
- Capturing patient information at nursing shift changes: methodological evaluation of speech recognition and information extraction.Journal of the American Medical Informatics Association : JAMIA · 2015Article
- Anatomical entity recognition with a hierarchical framework augmented by external resources.PloS one · 2014Article
- Feasibility and implementation of a literature information management system for human papillomavirus in head and neck cancers with imaging.Cancer informatics · 2014Article
- An evaluation of a natural language processing tool for identifying and encoding allergy information in emergency department clinical notes.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2014Article
- Enabling claims-based decision support through non-interruptive capture of admission diagnoses and provider billing codes.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2014Article
- Unsupervised biomedical named entity recognition: experiments with clinical and biological texts.Journal of biomedical informatics · 2013Article
- Information from Searching Content with an Ontology-Utilizing Toolkit (iSCOUT).Journal of digital imaging · 2012Article
- Automatic extraction of semantic relations between medical entities: a rule based approach.Journal of biomedical semantics · 2011Article
- Evaluation of negation and uncertainty detection and its impact on precision and recall in search.Journal of digital imaging · 2011Article
- Aligning Structured and Unstructured Medical Problems Using UMLS.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2010Article
- Annotating the human genome with Disease Ontology.BMC genomics · 2009Article
- Content and structure of clinical problem lists: a corpus analysis.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2008Article
- Named entity recognition of follow-up and time information in 20,000 radiology reports.Journal of the American Medical Informatics Association : JAMIAArticle
- Hybrid methods for improving information access in clinical documents: concept, assertion, and relation identification.Journal of the American Medical Informatics Association : JAMIAArticle
- Natural Language Processing for EHR-Based Computational Phenotyping.IEEE/ACM transactions on computational biology and bioinformaticsReview
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To help maintain a complete, accurate and timely Problem List, we are developing a system to automatically retrieve medical problems from free-text documents. This system uses Natural Language Processing to analyze all electronic narrative text documents in a patient's record. Here we evaluate and compare 3 different applications of NLP technology in our system: the first using MMTx (MetaMap Transfer) with a negation detection algorithm (NegEx), the second using an alpha version of a locally developed NLP application called MPLUS2, and the third using keyword searching. They were adapted and trained to extract medical problems from a set of 80 problems of diagnosis type. The version using MMTx and NegEx was improved by adding some disambiguation and modifying the negation detection algorithm, and these modifications significantly improved recall and precision. The different versions of the NLP module were compared, and showed the following recall / precision results: standard MMTx with NegEx version 0.775 / 0.398; improved MMTx with NegEx version 0.892 / 0.753; MPLUS2 version 0.693 / 0.402; and keyword searching version 0.575 / 0.807. Average results for the reviewers were a recall of 0.788 and a precision of 0.912.
Indexed as
Identifiers
16779095PMC1560561What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.