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SIFR Annotator: Ontology-Based Semantic Annotation of French Biomedical Text and Clinical Notes
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In: ISSN: 1471-2105 ; BMC Bioinformatics ; https://hal-lirmm.ccsd.cnrs.fr/lirmm-01934127 ; BMC Bioinformatics, BioMed Central, 2018, 19 (1), pp.405-431. ⟨10.1186/s12859-018-2429-2⟩ (2018)
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Challenges for ontology repositories and applications to biomedicine & agronomy
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In: 4th Annual International Symposium on Information Management and Big Data ; SIMBig: Symposium on Information Management and Big Data ; https://hal-lirmm.ccsd.cnrs.fr/lirmm-01679500 ; SIMBig: Symposium on Information Management and Big Data, Sep 2017, Lima, Peru. pp.25-37 ; http://simbig.org/SIMBig2017/ (2017)
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Réconciliation d'alignements multilingues dans BioPortal
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In: 27es Journées francophones d'Ingénierie des Connaissances ; IC: Ingénierie des Connaissances ; https://hal-lirmm.ccsd.cnrs.fr/lirmm-01395900 ; IC: Ingénierie des Connaissances, Jun 2016, Montpellier, France ; https://ic2016.sciencesconf.org/ (2016)
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Multilingual Mapping Reconciliation between English-French Biomedical Ontologies
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In: 6th International Conference on Web Intelligence, Mining and Semantics ; WIMS: Web Intelligence, Mining and Semantics ; https://hal-lirmm.ccsd.cnrs.fr/lirmm-01395880 ; WIMS: Web Intelligence, Mining and Semantics, Jun 2016, Nîmes, France. ⟨10.1145/2912845.2912847⟩ ; http://wims2016.mines-ales.fr/ (2016)
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Roadmap for a multilingual BioPortal
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In: 4th Workshop on the Multilingual Semantic Web ; MSW: Multilingual Semantic Web ; https://hal-lirmm.ccsd.cnrs.fr/lirmm-01172218 ; MSW: Multilingual Semantic Web, Jun 2015, Portoroz, Slovenia (2015)
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Scoring semantic annotations returned by the NCBO Annotator
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In: 7th International Semantic Web Applications and Tools for Life Sciences ; SWAT4LS: Semantic Web Applications and Tools for Life Sciences ; https://hal-lirmm.ccsd.cnrs.fr/lirmm-01099860 ; SWAT4LS: Semantic Web Applications and Tools for Life Sciences, Dec 2014, Berlin, Germany ; http://ceur-ws.org/Vol-1320/ (2014)
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The Lexicon Builder Web service: Building Custom Lexicons from two hundred Biomedical Ontologies
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In: American Medical Informatics Association Annual Symposium, AMIA'10 ; https://hal.archives-ouvertes.fr/hal-00558033 ; American Medical Informatics Association Annual Symposium, AMIA'10, Nov 2010, Washington, DC, United States. pp.6 (2010)
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Abstract:
International audience ; Domain specific biomedical lexicons are extensively used by researchers for natural language processing tasks. Currently these lexicons are created manually by expert curators and there is a pressing need for automated methods to compile such lexicons. The Lexicon Builder Web service addresses this need and reduces the investment of time and effort involved in lexicon maintenance. The service has three components: Inclusion – selects one or several ontologies (or its branches) and includes preferred names and synonym terms; Exclusion – filters terms based on the term's Medline frequency, syntactic type, UMLS semantic type and match with stopwords; Output – aggregates information, handles compression and output formats. Evaluation demonstrates that the service has high accuracy and runtime performance. It is currently being evaluated for several use cases to establish its utility in biomedical information processing tasks. The Lexicon Builder promotes collaboration, sharing and standardization of lexicons amongst researchers by automating the creation, maintainence and cross referencing of custom lexicons.
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Keyword:
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM]; [INFO.INFO-TT]Computer Science [cs]/Document and Text Processing; [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]; biomedical lexicons; biomedical ontologies; natural language processing
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URL: https://hal.archives-ouvertes.fr/hal-00558033
https://hal.archives-ouvertes.fr/hal-00558033/document
https://hal.archives-ouvertes.fr/hal-00558033/file/Article-AMIA10-LexiconBuilder.pdf
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What Four Million Mappings Can Tell You about Two Hundred Ontologies
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In: 8th International Semantic Web Conference, ISWC'09 ; https://hal.archives-ouvertes.fr/hal-00489094 ; 8th International Semantic Web Conference, ISWC'09, Oct 2009, Washington DC, United States. pp.229-242 (2009)
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