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UIMA ConceptMapper Dictionaries for the Annotation of the 2021 BioASQ Corpus with Drug Names and Terms from Epilepsy Ontologies - MaRDI portal

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UIMA ConceptMapper Dictionaries for the Annotation of the 2021 BioASQ Corpus with Drug Names and Terms from Epilepsy Ontologies

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DOI10.5281/zenodo.4683353Zenodo4683353MaRDI QIDQ6693315

Dataset published at Zenodo repository.

Author name not available (Why is that?)

Publication date: 13 April 2021

Copyright license: No records found.



Description

The dictionary files for the annotation of free text with terms from epilepsy ontologies bythe UIMA ConceptMapper are taken from NCBO BioPortal, namely from the ontologies EpSO, ESSO, EPILONT, EPISEM and FENICS: https://bioportal.bioontology.org/ontologies/EPSO https://bioportal.bioontology.org/ontologies/ESSO https://bioportal.bioontology.org/ontologies/EPILONT https://bioportal.bioontology.org/ontologies/EPISEM https://bioportal.bioontology.org/ontologies/FENICS The dictionary for the identification of drug names is derived from the DrugBank vocabulary available online at https://go.drugbank.com/releases/latest#open-data. Further descriptions of making use of the UIMA-based text mining workflow can be found in the following publications: Bernd Mller, Alexandra Hagelstein: Beyond Metadata: Enriching life science publications in Livivo with semantic entities from the linked data cloud. SEMANTiCS (Posters, Demos, SuCCESS) 2016 Bernd Mller, Alexandra Hagelstein, Thomas Gbitz: Life Science Ontologies in Literature Retrieval: A Comparison of Linked Data Sets for Use in Semantic Search on a Heterogeneous Corpus. EKAW (Satellite Events) 2016: 158-161 Bernd Mller, Christoph Poley, Jana Pssel, Alexandra Hagelstein, Thomas Gbitz: LIVIVO - the Vertical Search Engine for Life Sciences. Datenbank-Spektrum 17(1): 29-34 (2017) Bernd Mller, Dietrich Rebholz-Schuhmann: Selected Approaches Ranking Contextual Term for the BioASQ Multi-label Classification (Task6a and 7a). PKDD/ECML Workshops (2) 2019: 569-580 The dictionary files are in particular: Dict_DrugNames.xml - constructed from the DrugBank vocabulary Dict_EpSO.xml - constructed from the EpSO ontology Dict_ESSO.xml - constructed from the ESSO ontology Dict_EPILONT.xml - constructed from the EPILONTontology Dict_EPISEM.xml- constructed from the EPISEMontology Dict_FENICS.xml - constructed from the FENICSontology The dictionaries were used with the UIMA ConceptMapper for the annotation of the 2021 BioASQ corpus resulting in theBioASQ Sub-Corpus for the Pharmacology of Epilepsy (BioPepsy). Please cite this data as: Mller, Bernd. UIMA ConceptMapper Dictionaries for the Annotation of the 2021 BioASQ Corpus with Drug Names and Terms from Epilepsy Ontologies. ZENODO,10.5281/zenodo.4683353






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