xGENIA: A comprehensive OWL ontology based on the GENIA corpus

The GENIA ontology is a taxonomy that was developed as a result of manual annotation of a subset of MEDLINE, the GENIA corpus. Both the ontology and corpus have been used as a benchmark to test and develop biological information extraction tools. Recent work shows, however, that there is a demand fo...

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Detalles Bibliográficos
Autores principales: Rak, Rafal, Kurgan, Lukasz, Reformat, Marek
Formato: Texto
Lenguaje:English
Publicado: Biomedical Informatics Publishing Group 2007
Materias:
Web Database
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891717/
https://www.ncbi.nlm.nih.gov/pubmed/17597921
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author Rak, Rafal
Kurgan, Lukasz
Reformat, Marek
author_facet Rak, Rafal
Kurgan, Lukasz
Reformat, Marek
author_sort Rak, Rafal
collection PubMed
description The GENIA ontology is a taxonomy that was developed as a result of manual annotation of a subset of MEDLINE, the GENIA corpus. Both the ontology and corpus have been used as a benchmark to test and develop biological information extraction tools. Recent work shows, however, that there is a demand for a more comprehensive ontology that would go along with the corpus. We propose a complete OWL ontology built on top of the GENIA ontology utilizing the GENIA corpus. The proposed ontology includes elements such as the original taxonomy of categories, biological entities as individuals, relations between individuals using verbs and verb nominalizations as object properties, and links to the UMLS® Metathesaurus concepts. AVAILABILITY: http://www.ece.ualberta.ca/~rrak/ontology/xGENIA/
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spelling pubmed-18917172007-06-27 xGENIA: A comprehensive OWL ontology based on the GENIA corpus Rak, Rafal Kurgan, Lukasz Reformat, Marek Bioinformation Web Database The GENIA ontology is a taxonomy that was developed as a result of manual annotation of a subset of MEDLINE, the GENIA corpus. Both the ontology and corpus have been used as a benchmark to test and develop biological information extraction tools. Recent work shows, however, that there is a demand for a more comprehensive ontology that would go along with the corpus. We propose a complete OWL ontology built on top of the GENIA ontology utilizing the GENIA corpus. The proposed ontology includes elements such as the original taxonomy of categories, biological entities as individuals, relations between individuals using verbs and verb nominalizations as object properties, and links to the UMLS® Metathesaurus concepts. AVAILABILITY: http://www.ece.ualberta.ca/~rrak/ontology/xGENIA/ Biomedical Informatics Publishing Group 2007-03-20 /pmc/articles/PMC1891717/ /pubmed/17597921 Text en © 2006 Biomedical Informatics Publishing Group This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.
spellingShingle Web Database
Rak, Rafal
Kurgan, Lukasz
Reformat, Marek
xGENIA: A comprehensive OWL ontology based on the GENIA corpus
title xGENIA: A comprehensive OWL ontology based on the GENIA corpus
title_full xGENIA: A comprehensive OWL ontology based on the GENIA corpus
title_fullStr xGENIA: A comprehensive OWL ontology based on the GENIA corpus
title_full_unstemmed xGENIA: A comprehensive OWL ontology based on the GENIA corpus
title_short xGENIA: A comprehensive OWL ontology based on the GENIA corpus
title_sort xgenia: a comprehensive owl ontology based on the genia corpus
topic Web Database
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891717/
https://www.ncbi.nlm.nih.gov/pubmed/17597921
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AT kurganlukasz xgeniaacomprehensiveowlontologybasedonthegeniacorpus
AT reformatmarek xgeniaacomprehensiveowlontologybasedonthegeniacorpus

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