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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...

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Detalles Bibliográficos
Autores principales: Griffon, Nicolas, Chebil, Wiem, Rollin, Laetitia, Kerdelhue, Gaetan, Thirion, Benoit, Gehanno, Jean-François, Darmoni, Stéfan Jacques
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2012
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.
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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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