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Aligning the Parasite Experiment Ontology and the Ontology for Biomedical Investigations Using AgreementMaker
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In: Kno.e.sis Publications (2011)
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Abstract:
Tremendous amounts of data exist in life sciences along with many bio-ontologies. Though these databases contain important information about gene, proteins, functions, etc., this information is not well utilized due to the heterogeneous formats of these databases. Therefore, ontology alignment (OA) is now very critical for life science domain. Our work utilizes AgreementMaker for OA and describes results, difficulties faced in the process, and lessons learned. We aligned two real-world ontologies, the Parasite Experiment Ontology (PEO) and the Ontology for Biomedical Investigations (OBI). The former is more application- oriented and the latter is a reference ontology for any biomedical or clinical investigations. Our study led to several enhancements to AgreementMaker: annotation profiling, mapping provenance information, and tailored lexicon building. These enhancements, which are applicable to any OA system, greatly improved the alignment of these real world ontologies, producing 90% precision with 60% recall from the BSMlex+, the Base Similarity Matcher, and 57% precision with 67% recall from the PSMlex+, the Parametric String Matcher, both using lexicon lookup for synonyms. The mappings obtained through this study are posted on BioPortal site for public use.
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Keyword:
Bioinformatics; Biomedical ontologies; Communication; Communication Technology and New Media; Computer Sciences; Databases and Information Systems; Lexicons; Life Sciences; Mapping provenance; Ontology alignment; Ontology profiling; OS and Networks; Physical Sciences and Mathematics; Science and Technology Studies; Social and Behavioral Sciences
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URL: http://icbo.buffalo.edu/ICBO-2011_Proceedings.pdf#page=139
https://corescholar.libraries.wright.edu/knoesis/12
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| 63 |
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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| 64 |
NOMINA AGENTIS В ДВУЯЗЫЧНЫХ ЛЕКСИКОНАХ XVII ВЕКА
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Бовсуновская, А.. - : Государственное образовательное учреждение высшего профессионального образования "Нижегородский государственный университет им. Н.И. Лобачевского", 2010
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| 68 |
Subjectivity Word Sense Disambiguation
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In: Conference on Empirical Methods in Natural Language Processing (EMNLP), 2009, Singapore (2009)
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| 69 |
Integrating Knowledge for Subjectivity Sense Labeling
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In: Association for Computational Linguistics. North American Chapter (NAACL) Conference, 2009, Boulder, Colorado, United States (2009)
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| 70 |
Sylva : plate-forme de validation multi-niveaux de lexiques
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In: Actes de Traitement Automatique des Langues Naturelles ; Traitement Automatique des Langues Naturelles ; https://hal.archives-ouvertes.fr/hal-00336290 ; Traitement Automatique des Langues Naturelles, Jun 2008, Avignon, France. pp.0 (2008)
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| 71 |
Dublin City University at CLEF 2007: Cross-Language Speech Retrieval Experiments
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In: Zhang, Ying, Jones, Gareth J.F. orcid:0000-0003-2923-8365 and Zhang, Ke (2008) Dublin City University at CLEF 2007: Cross-Language Speech Retrieval Experiments. In: CLEF 2007: Workshop on Cross Language Information Retrieval and Evaluation, 19-21 Sept. 2007, Budapest, Hungary. (2008)
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| 72 |
Extracting multilingual lexicons from parallel corpora
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In: http://www.racai.ro/~tufis/papers/Tufis-Barbu-ACH2001.pdf (2008)
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| 73 |
Lanbona yen I niimn ; Lexique Moba (Ben) - Français ; Moba-French Dictionary
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| 74 |
Extensión y corrección semi-automática de léxicos morfo-sintácticos ; Semi-automatic extension and correction of morpho-syntactic lexicons
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| 75 |
APPROACH TO THE SCIENTIFIC LEXICON OF CENTURY XVIII ; APROXIMACIÓN AL LÉXICO CIENTÍFICO DEL SIGLO XVIII
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In: Journal of Linguistic Research; Vol. 11 (2008): Lexicografía y Léxico Históricos; 79-94 ; Revista de Investigación Lingüística; Vol. 11 (2008): Lexicografía y Léxico Históricos; 79-94 ; 1989-4554 ; 1139-1146 (2008)
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| 76 |
Le CNRTL, Centre National de Ressources Textuelles et Lexicales, un outil de mutualisation de ressources linguistiques
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In: ISSN: 1248-9433 ; EISSN: 1965-0906 ; Revue TAL ; https://halshs.archives-ouvertes.fr/halshs-00141265 ; Revue TAL, ATALA (Association pour le Traitement Automatique des Langues), 2007, pp.15-20 (2007)
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| 77 |
Valorisation et exploitation scientifiques de documents numériques pour la recherche en linguistique : l'exemple du CNRTL
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In: Europia ; Actes de CIDE 2007 Congrès International sur le Document Numérique, Nancy , 2-4 juillet 2007. ; https://halshs.archives-ouvertes.fr/halshs-00398659 ; Actes de CIDE 2007 Congrès International sur le Document Numérique, Nancy 2-4 juillet 2007., Jul 2007, Nancy, France. pp.13-24 (2007)
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| 78 |
Scaling Up of Action Repertoire in Linguisitic Cognitive Agents
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In: DTIC (2007)
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| 80 |
Indução de léxicos bilíngües e regras para a tradução automática ; Induction of translation lexicons and transfer rules for machine translation
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