GASTon: A Graph-Exploration System for Indexing, Annotating and Visualizing PubMed Articles to Enhance the Analysis of Social deTerminants of Health

Simone Bottoni, Alberto Trombetta, Flavio Bertini, Danilo Montesi, Francesca Bonin, Alessandra Pascale, Martin Gleize, Pierpaolo Tommasi

2023

Abstract

Many works have shown associations between social determinants of health (SDoH) –the social circumstances in which people live– and health-related outcomes. However, the lack of SDoH data increases the challenges in measuring and understanding their effect on people’s health and health systems. In this paper, we present GASTon, a system for the indexing, annotation, and graph-based rendering of PubMed information to enable the search and retrieval of SDoHs in scientific literature. Our work provides a way to associate specific concepts with peer-reviewed articles to simplify the search for social factors. It builds a knowledge graph based on PubMed publications and associates them with concepts extracted from the Unified Medical Language System (UMLS) Metathesaurus. GASTon allows a full-text search and graph-based navigation and supports an overview of the concepts and related publications. Moreover, the architecture allows scale-up thanks to its containerized nature and parallelization capabilities. The system is open-source under the Apache V2 license.

Paper Citation

in Harvard Style

Bottoni S., Trombetta A., Bertini F., Montesi D., Bonin F., Pascale A., Gleize M. and Tommasi P. (2023). GASTon: A Graph-Exploration System for Indexing, Annotating and Visualizing PubMed Articles to Enhance the Analysis of Social deTerminants of Health. In Proceedings of the 16th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2023) - Volume 5: HEALTHINF; ISBN 978-989-758-631-6, SciTePress, pages 424-431. DOI: 10.5220/0011714900003414

in Bibtex Style

@conference{healthinf23,
author={Simone Bottoni and Alberto Trombetta and Flavio Bertini and Danilo Montesi and Francesca Bonin and Alessandra Pascale and Martin Gleize and Pierpaolo Tommasi},
title={GASTon: A Graph-Exploration System for Indexing, Annotating and Visualizing PubMed Articles to Enhance the Analysis of Social deTerminants of Health},
booktitle={Proceedings of the 16th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2023) - Volume 5: HEALTHINF},
year={2023},
pages={424-431},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0011714900003414},
isbn={978-989-758-631-6},
}

in EndNote Style

TY - CONF

JO - Proceedings of the 16th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2023) - Volume 5: HEALTHINF
TI - GASTon: A Graph-Exploration System for Indexing, Annotating and Visualizing PubMed Articles to Enhance the Analysis of Social deTerminants of Health
SN - 978-989-758-631-6
AU - Bottoni S.
AU - Trombetta A.
AU - Bertini F.
AU - Montesi D.
AU - Bonin F.
AU - Pascale A.
AU - Gleize M.
AU - Tommasi P.
PY - 2023
SP - 424
EP - 431
DO - 10.5220/0011714900003414
PB - SciTePress