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Interpretable entity meta-alignment in knowledge graphs using penalized regression: a case study in the biomedical domain

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Abstract

In recent times, the use of knowledge graphs has been massively adopted so that many of these graphs can even be found publicly on the Web. This makes that solutions for solving interoperability problems among them might be in high demand. The reason is that unifying these knowledge graphs could impact a wide range of industrial and academic disciplines that can benefit from aspects such as the ability to configure queries that were not possible until now, for example, in the biomedical domain where there are significant problems of semantic interoperability. To date, several effective methods have been put forward to solve the heterogeneity problems in this knowledge ecosystem. However, it is not possible to assess their superiority in each different scenario they are facing. Therefore, we explore several penalized regression techniques that can mitigate the risk of incurring severe errors in real settings and preserve properties related to the interpretability of the solution. As a result, we have obtained a proposal for entity meta-alignment that yields promising results in the biomedical domain.

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Notes

  1. The term meta-alignment reflects the idea that we do not build an alignment method from scratch, but we aim to build an ensemble of existing ones.

  2. https://wordnet.princeton.edu/.

  3. https://gsi-upm.github.io/sematch/.

  4. https://scikit-learn.org/.

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Acknowledgements

We would like to thank the anonymous reviewers for their help in improving the manuscript. This work has been funded by the project FR06/2020 by International Cooperation & Mobility (ICM) of the Austrian Agency for International Cooperation in Education and Research (OeAD-GmbH). It is also supported in part by the French Ministries of Europe and Foreign Affairs (MEFA) and of Higher Education, Research and Innovation (MHERI). Amadeus Program 2020 (French-Austrian Hubert Curien Partnership–PHC). Grant Number 44086TD.

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Authors and Affiliations

  1. Software Competence Center Hagenberg, Hagenberg, Austria

    Jorge Martinez-Gil

  2. IRIT Toulouse, Toulouse, France

    Riad Mokadem, Franck Morvan & Abdelkader Hameurlain

  3. Johannes Kepler University Linz, Linz, Austria

    Josef Küng

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  1. Jorge Martinez-Gil
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Martinez-Gil, J., Mokadem, R., Morvan, F. et al. Interpretable entity meta-alignment in knowledge graphs using penalized regression: a case study in the biomedical domain. Prog Artif Intell 11, 93–104 (2022). https://doi.org/10.1007/s13748-021-00263-1

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