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Extraction of Union and Intersection Axioms from Biomedical Text

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The Semantic Web: ESWC 2021 Satellite Events (ESWC 2021)

Part of the book series: Lecture Notes in Computer Science ((LNISA,volume 12739))

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Abstract

Many ontology, especially the ones created automatically by the ontology learning systems, have only shallow relationships between the concepts, i.e., simple subclass relations. Expressive axioms such as the class union and intersection are not part of the ontology. These expressive axioms make the ontology rich and play an essential role in the performance of downstream applications. However, such relations can generally be found in the text documents. We propose a mechanism and discuss our initial results in extracting union and intersection axioms from biomedical text using entity linking and taxonomic tree search.

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Notes

  1. 1.

    http://neon-toolkit.org/wiki/1.x/Text2Onto.html.

  2. 2.

    https://sourceforge.net/projects/doddle-owl/.

  3. 3.

    http://dl-learner.org/.

  4. 4.

    https://allenai.github.io/scispacy/.

  5. 5.

    https://metamap.nlm.nih.gov/.

  6. 6.

    https://www.nlm.nih.gov/research/umls/index.html.

  7. 7.

    https://github.com/ncbi-nlp/BioWordVec.

  8. 8.

    https://code.google.com/archive/p/word2vec/.

  9. 9.

    https://metamap.nlm.nih.gov/SemanticTypesAndGroups.shtml.

  10. 10.

    https://disease-ontology.org/.

  11. 11.

    https://www.ncbi.nlm.nih.gov/pmc.

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Author information

Authors and Affiliations

  1. Knowledgeable Computing and Reasoning Lab, IIIT-Delhi, Delhi, India

    Nikhil Sachdeva, Monika Jain & Raghava Mutharaju

Authors
  1. Nikhil Sachdeva
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  2. Monika Jain
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  3. Raghava Mutharaju
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Corresponding author

Correspondence to Nikhil Sachdeva .

Editor information

Editors and Affiliations

  1. IMEC, Ghent University, Ghent, Belgium

    Ruben Verborgh

  2. Faculty of Engineering and Architecture, Ghent University, Ghent, Belgium

    Anastasia Dimou

  3. University of Chile, Santiago, Chile

    Aidan Hogan

  4. Università degli Studi di Bari, Bari, Italy

    Claudia d'Amato

  5. Faculty of Computer Science, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands

    Ilaria Tiddi

  6. Corporate Technology, Siemens Aktiengesellschaft, München, Bayern, Germany

    Arne Bröring

  7. University of St. Gallen, St. Gallen, St. Gallen, Switzerland

    Simon Mayer

  8. Ghent University, Ghent, Belgium

    Femke Ongenae

  9. Institute of Computer Science, University of Tartu, Tartu, Estonia

    Riccardo Tommasini

  10. Information Infrastructure, FIZ Karlsruhe - Leibniz Institute for Information Infrastructure, Karlsruhe, Germany

    Mehwish Alam

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Sachdeva, N., Jain, M., Mutharaju, R. (2021). Extraction of Union and Intersection Axioms from Biomedical Text. In: Verborgh, R., et al. The Semantic Web: ESWC 2021 Satellite Events. ESWC 2021. Lecture Notes in Computer Science(), vol 12739. Springer, Cham. https://doi.org/10.1007/978-3-030-80418-3_27

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  • DOI: https://doi.org/10.1007/978-3-030-80418-3_27

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-80417-6

  • Online ISBN: 978-3-030-80418-3

  • eBook Packages: Computer ScienceComputer Science (R0)

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