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Performance evaluation of unified medical language system(®)'s synonyms expansion to query PubMed
BACKGROUND: PubMed is the main access to medical literature on the Internet. In order to enhance the performance of its information retrieval tools, primarily non-indexed citations, the authors propose a method: expanding users' queries using Unified Medical Language System' (UMLS) synonym...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3309945/ https://www.ncbi.nlm.nih.gov/pubmed/22376010 http://dx.doi.org/10.1186/1472-6947-12-12 |
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author | Griffon, Nicolas Chebil, Wiem Rollin, Laetitia Kerdelhue, Gaetan Thirion, Benoit Gehanno, Jean-François Darmoni, Stéfan Jacques |
author_facet | Griffon, Nicolas Chebil, Wiem Rollin, Laetitia Kerdelhue, Gaetan Thirion, Benoit Gehanno, Jean-François Darmoni, Stéfan Jacques |
author_sort | Griffon, Nicolas |
collection | PubMed |
description | BACKGROUND: PubMed is the main access to medical literature on the Internet. In order to enhance the performance of its information retrieval tools, primarily non-indexed citations, the authors propose a method: expanding users' queries using Unified Medical Language System' (UMLS) synonyms i.e. all the terms gathered under one unique Concept Unique Identifier. METHODS: This method was evaluated using queries constructed to emphasize the differences between this new method and the current PubMed automatic term mapping. Four experts assessed citation relevance. RESULTS: Using UMLS, we were able to retrieve new citations in 45.5% of queries, which implies a small increase in recall. The new strategy led to a heterogeneous 23.7% mean increase in non-indexed citation retrieved. Of these, 82% have been published less than 4 months earlier. The overall mean precision was 48.4% but differed according to the evaluators, ranging from 36.7% to 88.1% (Inter rater agreement was poor: kappa = 0.34). CONCLUSIONS: This study highlights the need for specific search tools for each type of user and use-cases. The proposed strategy may be useful to retrieve recent scientific advancement. |
format | Online Article Text |
id | pubmed-3309945 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-33099452012-03-23 Performance evaluation of unified medical language system(®)'s synonyms expansion to query PubMed Griffon, Nicolas Chebil, Wiem Rollin, Laetitia Kerdelhue, Gaetan Thirion, Benoit Gehanno, Jean-François Darmoni, Stéfan Jacques BMC Med Inform Decis Mak Research Article BACKGROUND: PubMed is the main access to medical literature on the Internet. In order to enhance the performance of its information retrieval tools, primarily non-indexed citations, the authors propose a method: expanding users' queries using Unified Medical Language System' (UMLS) synonyms i.e. all the terms gathered under one unique Concept Unique Identifier. METHODS: This method was evaluated using queries constructed to emphasize the differences between this new method and the current PubMed automatic term mapping. Four experts assessed citation relevance. RESULTS: Using UMLS, we were able to retrieve new citations in 45.5% of queries, which implies a small increase in recall. The new strategy led to a heterogeneous 23.7% mean increase in non-indexed citation retrieved. Of these, 82% have been published less than 4 months earlier. The overall mean precision was 48.4% but differed according to the evaluators, ranging from 36.7% to 88.1% (Inter rater agreement was poor: kappa = 0.34). CONCLUSIONS: This study highlights the need for specific search tools for each type of user and use-cases. The proposed strategy may be useful to retrieve recent scientific advancement. BioMed Central 2012-02-29 /pmc/articles/PMC3309945/ /pubmed/22376010 http://dx.doi.org/10.1186/1472-6947-12-12 Text en Copyright ©2012 Griffon et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Griffon, Nicolas Chebil, Wiem Rollin, Laetitia Kerdelhue, Gaetan Thirion, Benoit Gehanno, Jean-François Darmoni, Stéfan Jacques Performance evaluation of unified medical language system(®)'s synonyms expansion to query PubMed |
title | Performance evaluation of unified medical language system(®)'s synonyms expansion to query PubMed |
title_full | Performance evaluation of unified medical language system(®)'s synonyms expansion to query PubMed |
title_fullStr | Performance evaluation of unified medical language system(®)'s synonyms expansion to query PubMed |
title_full_unstemmed | Performance evaluation of unified medical language system(®)'s synonyms expansion to query PubMed |
title_short | Performance evaluation of unified medical language system(®)'s synonyms expansion to query PubMed |
title_sort | performance evaluation of unified medical language system(®)'s synonyms expansion to query pubmed |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3309945/ https://www.ncbi.nlm.nih.gov/pubmed/22376010 http://dx.doi.org/10.1186/1472-6947-12-12 |
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