BioASQ Synergy: a dialogue between question-answering systems and biomedical experts for promoting COVID-19 research

Author:

Krithara Anastasia1ORCID,Nentidis Anastasios12,Vandorou Eirini1,Katsimpras Georgios1,Almirantis Yannis3,Arnal Magda4,Bunevicius Adomas56,Farre-Maduell Eulalia7,Kassiss Maya8,Konstantakos Vasileios1ORCID,Matis-Mitchell Sherri9,Polychronopoulos Dimitris10ORCID,Rodriguez-Pascual Jesus11,Samaras Eleftherios G12,Samiotaki Martina13ORCID,Sanoudou Despina1415,Vozi Aspasia16ORCID,Paliouras Georgios1

Affiliation:

1. Institute of Informatics and Telecommunications, National Center for Scientific Research “Demokritos” , Athens 15341, Greece

2. Department of Informatics, Aristotle University of Thessaloniki , Thessaloniki 54124, Greece

3. Institute of Biosciences and Applications, National Center for Scientific Research “Demokritos” , Athens 15341, Greece

4. Department of Biology “Charles Darwin”, Sapienza University of Rome , Rome 00185, Italy

5. Lithuanian University of Health Sciences , Kaunas 44307, Lithuania

6. Columbia University Vagelos College of Physicians and Surgeons , New York, NY 10033, United States

7. Barcelona Supercomputing Center , Barcelona 08034, Spain

8. NHS Improvement , London SE1 8UG, United Kingdom

9. AstraZeneca Pharmaceuticals , Wilmington, DE 19803, United States

10. Ochre Bio Ltd , Oxford OX4 4GB, United Kingdom

11. Hospital Vithas Madrid la Milagrosa , Madrid 28010, Spain

12. St George’s University of London , London SW17 0RE, United Kingdom

13. Institute for Bioinnovation, BSRC “Alexander Fleming” , Vari 16672, Greece

14. Clinical Genomics and Pharmacogenomics Unit, 4th Department of Internal Medicine, Attikon Hospital, Medical School, National and Kapodistrian University of Athens , Athens 12462, Greece

15. Molecular Biology Division, Biomedical Research Foundation of the Academy of Athens , Athens 11527, Greece

16. Department of Informatics and Telecommunications, National and Kapodistrian University of Athens , Athens 16122, Greece

Abstract

Abstract Objective This article presents the novel BioASQ Synergy research process which aims to facilitate the interaction between biomedical experts and automated question-answering systems. Materials and Methods The proposed research allows systems to provide answers to emerging questions, which in turn are assessed by experts. The assessment of the experts is fed back to the systems, together with new questions. With this iteration, we aim to facilitate the incremental understanding of a developing problem and contribute to solution discovery. Results The results suggest that the proposed approach can assist researchers to navigate available resources. The experts seem to be very satisfied with the quality of the ideal answers provided by the systems, suggesting that such systems are already useful in answering open research questions. Discussion BioASQ Synergy aspires to provide a tool that gives the experts easy and personalized access to the latest findings in a fast-growing corpus of material. Conclusion In this article, we envisioned BioASQ Synergy as a continuous dialogue between experts and systems to issue open questions. We ran an initial proof-of-concept of the approach, in order to evaluate its usefulness, both from the side of the experts, as well as from the side of the participating systems.

Funder

Leducq Foundation for Cardiovascular Research

Encargo PlanTL

Publisher

Oxford University Press (OUP)

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