A UIMA wrapper for the NCBO annotator

Summary: The Unstructured Information Management Architecture (UIMA) framework and web services are emerging as useful tools for integrating biomedical text mining tools. This note describes our work, which wraps the National Center for Biomedical Ontology (NCBO) Annotator—an ontology-based annotati...

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Autores principales: Roeder, Christophe, Jonquet, Clement, Shah, Nigam H., Baumgartner, William A., Verspoor, Karin, Hunter, Lawrence
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2010
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2894505/
https://www.ncbi.nlm.nih.gov/pubmed/20505005
http://dx.doi.org/10.1093/bioinformatics/btq250
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author Roeder, Christophe
Jonquet, Clement
Shah, Nigam H.
Baumgartner, William A.
Verspoor, Karin
Hunter, Lawrence
author_facet Roeder, Christophe
Jonquet, Clement
Shah, Nigam H.
Baumgartner, William A.
Verspoor, Karin
Hunter, Lawrence
author_sort Roeder, Christophe
collection PubMed
description Summary: The Unstructured Information Management Architecture (UIMA) framework and web services are emerging as useful tools for integrating biomedical text mining tools. This note describes our work, which wraps the National Center for Biomedical Ontology (NCBO) Annotator—an ontology-based annotation service—to make it available as a component in UIMA workflows. Availability: This wrapper is freely available on the web at http://bionlp-uima.sourceforge.net/ as part of the UIMA tools distribution from the Center for Computational Pharmacology (CCP) at the University of Colorado School of Medicine. It has been implemented in Java for support on Mac OS X, Linux and MS Windows. Contact: chris.roeder@ucdenver.edu
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spelling pubmed-28945052010-07-01 A UIMA wrapper for the NCBO annotator Roeder, Christophe Jonquet, Clement Shah, Nigam H. Baumgartner, William A. Verspoor, Karin Hunter, Lawrence Bioinformatics Applications Note Summary: The Unstructured Information Management Architecture (UIMA) framework and web services are emerging as useful tools for integrating biomedical text mining tools. This note describes our work, which wraps the National Center for Biomedical Ontology (NCBO) Annotator—an ontology-based annotation service—to make it available as a component in UIMA workflows. Availability: This wrapper is freely available on the web at http://bionlp-uima.sourceforge.net/ as part of the UIMA tools distribution from the Center for Computational Pharmacology (CCP) at the University of Colorado School of Medicine. It has been implemented in Java for support on Mac OS X, Linux and MS Windows. Contact: chris.roeder@ucdenver.edu Oxford University Press 2010-07-15 2010-05-26 /pmc/articles/PMC2894505/ /pubmed/20505005 http://dx.doi.org/10.1093/bioinformatics/btq250 Text en © The Author(s) 2010. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Roeder, Christophe
Jonquet, Clement
Shah, Nigam H.
Baumgartner, William A.
Verspoor, Karin
Hunter, Lawrence
A UIMA wrapper for the NCBO annotator
title A UIMA wrapper for the NCBO annotator
title_full A UIMA wrapper for the NCBO annotator
title_fullStr A UIMA wrapper for the NCBO annotator
title_full_unstemmed A UIMA wrapper for the NCBO annotator
title_short A UIMA wrapper for the NCBO annotator
title_sort uima wrapper for the ncbo annotator
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2894505/
https://www.ncbi.nlm.nih.gov/pubmed/20505005
http://dx.doi.org/10.1093/bioinformatics/btq250
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