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Training Biomedical Researchers in Metadata with a MIBBI-Based Ontology

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Metadata and Semantic Research (MTSR 2019)

Part of the book series: Communications in Computer and Information Science ((CCIS,volume 1057))

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Abstract

Recent initiatives in data management recognize that involving the researchers is one of the more problematic issues and that taking into account the practices of each domain can ease this process. We describe here an experiment in the adoption of data description by researchers in the biomedical domain. We started with a generic lightweight ontology based on the Minimum Information for Biological and Biomedical Investigations (MIBBI) standard and presented it to researchers from the Institute of Innovation and Investigation in Health (I3S) in Porto. This resulted in seven interviews and four data description sessions using a RDM platform. The feedback from researchers shows that this intentionally restricted ontology favours an easy entry point into RDM but does not prevent them from identifying the limitations of the model and pinpointing their specific domain requirements. To complete the experiment, we collected the extra descriptors suggested by the researchers and compared them to the full MIBBI. Part of these new descriptors can be obtained from the standard, reinforcing the importance of common metadata models for broad domains such as biomedical research.

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Notes

  1. 1.

    http://rd-alliance.github.io/metadata-directory/standards/.

  2. 2.

    http://www.dcc.ac.uk/resources/standards/.

  3. 3.

    https://docs.patricbrc.org/user_guides/organisms_taxon/genome_metadata.html.

  4. 4.

    https://fairsharing.org/collection/MIBBI.

  5. 5.

    http://www.obofoundry.org/.

  6. 6.

    http://bioportal.bioontology.org/.

  7. 7.

    http://protege.stanford.edu/.

  8. 8.

    http://www.dublincore.org/specifications/dublin-core/dces/.

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Acknowledgements

This work is financed by the ERDF – European Regional Development Fund through the Operational Programme for Competitiveness and Internationalisation - COMPETE 2020 Programme and by National Funds through the Portuguese funding agency, FCT - Fundação para a Ciência e a Tecnologia within project TAIL, POCI-01-0145-FEDER-016736. João Aguiar Castro is supported by research grant PD/BD/114143/2015, provided by the FCT - Fundação para a Ciência e a Tecnologia.

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Authors and Affiliations

  1. INESC TEC, Faculdade de Engenharia, Universidade do Porto, Rua Dr. Roberto Frias, 4200-465, Porto, Portugal

    Marcelo Sampaio, Ana Luís Ferreira, João Aguiar Castro & Cristina Ribeiro

Authors
  1. Marcelo Sampaio
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  2. Ana Luís Ferreira
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  3. João Aguiar Castro
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  4. Cristina Ribeiro
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Corresponding author

Correspondence to João Aguiar Castro .

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Editors and Affiliations

  1. International Hellenic University, Thessaloniki, Greece

    Emmanouel Garoufallou

  2. Guglielmo Marconi University, Rome, Italy

    Francesca Fallucchi

  3. Georg Eckert Institute – Leibniz Institute for International Textbook Research, Braunschweig, Germany

    Ernesto William De Luca

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Sampaio, M., Ferreira, A.L., Castro, J.A., Ribeiro, C. (2019). Training Biomedical Researchers in Metadata with a MIBBI-Based Ontology. In: Garoufallou, E., Fallucchi, F., William De Luca, E. (eds) Metadata and Semantic Research. MTSR 2019. Communications in Computer and Information Science, vol 1057. Springer, Cham. https://doi.org/10.1007/978-3-030-36599-8_3

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  • DOI: https://doi.org/10.1007/978-3-030-36599-8_3

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