Skip to main content

An Overview of Methods and Tools for Extraction of Knowledge for COVID-19 from Knowledge Graphs

  • Conference paper
  • First Online:
Pattern Recognition and Artificial Intelligence (ICPRAI 2022)

Abstract

The sanitary crisis provoked from the virus COVID-19 push researchers and practitioners to explore and find solutions to stamp the pandemic problem. Therefore many productions of various scientific papers and knowledge graphs are publicly accessible in internet. In this article is defined an overall description of the search engines available for COVID-19 information. A brief review of the knowledge graphs available for COVID-19 information is performed. This paper is an overview of the main relevant knowledge graph-based methods contributing in COVID-19 knowledge extraction and understanding. Furthermore, it is proposed a state-of-the-art of knowledge reasoning methods on COVID-19.

University Paris 8.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 129.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 169.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Notes

  1. 1.

    https://acd-try-it-out.mybluemix.net/preview.

  2. 2.

    https://docsearch.algolia.com/.

  3. 3.

    https://canberra.libguides.com/c.php?g=599346&p=4149722.

  4. 4.

    https://lg-covid-19-hotp.cs.duke.edu/.

  5. 5.

    https://covidgraph.org/.

  6. 6.

    https://ds-covid19.res.ibm.com/.

  7. 7.

    http://blender.cs.illinois.edu/covid19/.

  8. 8.

    https://spoke.ucsf.edu/.

  9. 9.

    https://knetminer.com/.

  10. 10.

    http://ctdbase.org/.

  11. 11.

    https://www.semanticscholar.org/cord19.

  12. 12.

    https://www.cdc.gov/library/researchguides/2019novelcoronavirus/researcharticles.html.

  13. 13.

    https://pubmed.ncbi.nlm.nih.gov/.

  14. 14.

    http://er.tacc.utexas.edu/datasets/ped.

  15. 15.

    http://covid19.i3s.unice.fr:8080/.

  16. 16.

    http://covidontheweb.inria.fr/sparql.

  17. 17.

    https://pandemic.internationalsos.com/2019-ncov/covid-19-data-visualisation.

  18. 18.

    https://www.cdc.gov/coronavirus/2019-ncov/cases-updates/cdc-in-action.html.

References

  1. Colavizza, G.: Meta-research on COVID-19: an overview of the early trends. arXiv preprint arXiv:2106.02961 (2021)

  2. Wise, C., et al.: COVID-19 knowledge graph: accelerating information retrieval and discovery for scientific literature. arXiv preprint arXiv:2007.12731 (2020)

  3. Papaioannou, J.-M., Mayrdorfer, M., Arnold, S., Gers, F.A., Budde, K., Löser, A.: Aspect-based passage retrieval with contextualized discourse vectors. In: Hiemstra, D., Moens, M.-F., Mothe, J., Perego, R., Potthast, M., Sebastiani, F. (eds.) ECIR 2021. LNCS, vol. 12657, pp. 537–542. Springer, Cham (2021). https://doi.org/10.1007/978-3-030-72240-1_61

    Chapter  Google Scholar 

  4. Wang, L.L., Lo, K.: Text mining approaches for dealing with the rapidly expanding literature on COVID-19. Brief. Bioinf. 22(2), 781–799 (2020)

    Article  Google Scholar 

  5. Köksal, A., et al.: Vapur: a search engine to find related protein-compound pairs in COVID-19 literature. arXiv preprint arXiv:2009.02526 (2020)

  6. Chen, X., Jia, S., Xiang, Y.: A review: knowledge reasoning over knowledge graph. Exp. Syst. Appl. 141, 112948 (2020)

    Article  Google Scholar 

  7. Verspoor, K., et al.: Brief description of COVID-SEE: the scientific evidence explorer for COVID-19 related research. In: Hiemstra, D., Moens, M.-F., Mothe, J., Perego, R., Potthast, M., Sebastiani, F. (eds.) ECIR 2021. LNCS, vol. 12657, pp. 559–564. Springer, Cham (2021). https://doi.org/10.1007/978-3-030-72240-1_65

    Chapter  Google Scholar 

  8. Michel, F., et al.: Covid-on-the-web: knowledge graph and services to advance COVID-19 research. In: Pan, J.Z., et al. (eds.) ISWC 2020. LNCS, vol. 12507, pp. 294–310. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-62466-8_19

    Chapter  Google Scholar 

  9. Turki, H., et al.: Representing COVID-19 information in collaborative knowledge graphs: the case of Wikidata. Semantic Web Preprint, pp. 1–32 (2021)

    Google Scholar 

  10. Chen, Q., Allot, A., Zhiyong, L.: LitCovid: an open database of COVID-19 literature. Nucleic Acids Res. 49(D1), D1534–D1540 (2021)

    Article  Google Scholar 

  11. Xu, J., et al.: Building a PubMed knowledge graph. Sci. Data 7(1), 1–15 (2020)

    Article  Google Scholar 

  12. Kejriwal, M.: Knowledge graphs and COVID-19: opportunities, challenges, and implementation. Harv. Data Sci. Rev. (2020)

    Google Scholar 

  13. Menin, A., et al.: Covid-on-the-Web: exploring the COVID-19 scientific literature through visualization of linked data from entity and argument mining. Quant. Sci. Stud. 2(4), 1301–1323 (2021)

    Article  Google Scholar 

  14. Al-Moslmi, T., Gallofre Ocana, M., L. Opdahl, A., Veres, C.: Named entity extraction for knowledge graphs: a literature overview. IEEE Access 8, 32862–32881 (2020)

    Article  Google Scholar 

  15. Baclawski, K., et al.: Ontology summit 2020 communiqué: knowledge graphs. Appl. Ontol. 16, 229–247 (2020)

    Article  Google Scholar 

  16. Zhang, R., et al.: Drug repurposing for COVID-19 via knowledge graph completion. J. Biomed. Inf. 115, 103696 (2021)

    Article  Google Scholar 

  17. Wang, X., et al.: Automatic textual evidence mining in COVID-19 literature. arXiv preprint arXiv:2004.12563 (2020)

  18. Liu, Y., Hildebrandt, M., Joblin, M., Ringsquandl, M., Raissouni, R., Tresp, V.: Neural multi-hop reasoning with logical rules on biomedical knowledge graphs. In: Verborgh, R., et al. (eds.) ESWC 2021. LNCS, vol. 12731, pp. 375–391. Springer, Cham (2021). https://doi.org/10.1007/978-3-030-77385-4_22

    Chapter  Google Scholar 

  19. Wang, J., et al.: Accelerating epidemiological investigation analysis by using NLP and knowledge reasoning: a case study on COVID-19. In: AMIA Annual Symposium Proceedings, vol. 2020. American Medical Informatics Association (2020)

    Google Scholar 

  20. Zhang, P., et al.: Toward a coronavirus knowledge graph. Genes 12(7), 998 (2021)

    Article  Google Scholar 

  21. Reese, J.T., et al.: KG-COVID-19: a framework to produce customized knowledge graphs for COVID-19 response. Patterns 2(1), 100155 (2021)

    Article  Google Scholar 

  22. Kanatsoulis, C.I., Nicholas D.S.: TeX-Graph: coupled tensor-matrix knowledge-graph embedding for COVID-19 drug repurposing. In: Proceedings of the 2021 SIAM International Conference on Data Mining (SDM). Society for Industrial and Applied Mathematics (2021)

    Google Scholar 

  23. Hearnshaw, J., Brandizi, M., Singh, A., Rawlings, C., Hassani-Pak, K.: Organizing knowledge to enable faster data interpretation in COVID-19 research. F1000Research 10, 703 (2021)

    Article  Google Scholar 

  24. Zeiser, F.A., Costa, C.A., Ramos, G.O., Bohn, H., Santos, I., Righi, R.R.: Evaluation of convolutional neural networks for COVID-19 classification on chest X-rays. In: Britto, A., Valdivia Delgado, K. (eds.) BRACIS 2021. LNCS (LNAI), vol. 13074, pp. 121–132. Springer, Cham (2021). https://doi.org/10.1007/978-3-030-91699-2_9

    Chapter  Google Scholar 

  25. Shaban, W.M., Rabie, A.H., Saleh, A.I., Abo-Elsoud, M.A.: Detecting COVID-19 patients based on fuzzy inference engine and deep neural network. Appl. Soft Comput. 99, 106906 (2021)

    Article  Google Scholar 

  26. Che, M., Yao, K., Che, C., Cao, Z., Kong, F.: Knowledge-graph-based drug repositioning against COVID-19 by graph convolutional network with attention mechanism. Fut. Internet 13(1), 13 (2021)

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding authors

Correspondence to Mariya Evtimova-Gardair or Nedra Mellouli .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2022 Springer Nature Switzerland AG

About this paper

Check for updates. Verify currency and authenticity via CrossMark

Cite this paper

Evtimova-Gardair, M., Mellouli, N. (2022). An Overview of Methods and Tools for Extraction of Knowledge for COVID-19 from Knowledge Graphs. In: El Yacoubi, M., Granger, E., Yuen, P.C., Pal, U., Vincent, N. (eds) Pattern Recognition and Artificial Intelligence. ICPRAI 2022. Lecture Notes in Computer Science, vol 13364. Springer, Cham. https://doi.org/10.1007/978-3-031-09282-4_34

Download citation

  • DOI: https://doi.org/10.1007/978-3-031-09282-4_34

  • Published:

  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-031-09281-7

  • Online ISBN: 978-3-031-09282-4

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics