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Network graph representation of COVID-19 scientific publications to aid knowledge discovery

INTRODUCTION: Numerous scientific journal articles related to COVID-19 have been rapidly published, making navigation and understanding of relationships difficult. METHODS: A graph network was constructed from the publicly available COVID-19 Open Research Dataset (CORD-19) of COVID-19-related public...

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Autores principales: Cernile, George, Heritage, Trevor, Sebire, Neil J, Gordon, Ben, Schwering, Taralyn, Kazemlou, Shana, Borecki, Yulia
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BMJ Publishing Group 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7798427/
https://www.ncbi.nlm.nih.gov/pubmed/33419870
http://dx.doi.org/10.1136/bmjhci-2020-100254
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author Cernile, George
Heritage, Trevor
Sebire, Neil J
Gordon, Ben
Schwering, Taralyn
Kazemlou, Shana
Borecki, Yulia
author_facet Cernile, George
Heritage, Trevor
Sebire, Neil J
Gordon, Ben
Schwering, Taralyn
Kazemlou, Shana
Borecki, Yulia
author_sort Cernile, George
collection PubMed
description INTRODUCTION: Numerous scientific journal articles related to COVID-19 have been rapidly published, making navigation and understanding of relationships difficult. METHODS: A graph network was constructed from the publicly available COVID-19 Open Research Dataset (CORD-19) of COVID-19-related publications using an engine leveraging medical knowledge bases to identify discrete medical concepts and an open-source tool (Gephi) to visualise the network. RESULTS: The network shows connections between diseases, medications and procedures identified from the title and abstract of 195 958 COVID-19-related publications (CORD-19 Dataset). Connections between terms with few publications, those unconnected to the main network and those irrelevant were not displayed. Nodes were coloured by knowledge base and the size of the node related to the number of publications containing the term. The data set and visualisations were made publicly accessible via a webtool. CONCLUSION: Knowledge management approaches (text mining and graph networks) can effectively allow rapid navigation and exploration of entity inter-relationships to improve understanding of diseases such as COVID-19.
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spelling pubmed-77984272021-01-11 Network graph representation of COVID-19 scientific publications to aid knowledge discovery Cernile, George Heritage, Trevor Sebire, Neil J Gordon, Ben Schwering, Taralyn Kazemlou, Shana Borecki, Yulia BMJ Health Care Inform Short Report INTRODUCTION: Numerous scientific journal articles related to COVID-19 have been rapidly published, making navigation and understanding of relationships difficult. METHODS: A graph network was constructed from the publicly available COVID-19 Open Research Dataset (CORD-19) of COVID-19-related publications using an engine leveraging medical knowledge bases to identify discrete medical concepts and an open-source tool (Gephi) to visualise the network. RESULTS: The network shows connections between diseases, medications and procedures identified from the title and abstract of 195 958 COVID-19-related publications (CORD-19 Dataset). Connections between terms with few publications, those unconnected to the main network and those irrelevant were not displayed. Nodes were coloured by knowledge base and the size of the node related to the number of publications containing the term. The data set and visualisations were made publicly accessible via a webtool. CONCLUSION: Knowledge management approaches (text mining and graph networks) can effectively allow rapid navigation and exploration of entity inter-relationships to improve understanding of diseases such as COVID-19. BMJ Publishing Group 2021-01-08 /pmc/articles/PMC7798427/ /pubmed/33419870 http://dx.doi.org/10.1136/bmjhci-2020-100254 Text en © Author(s) (or their employer(s)) 2021. Re-use permitted under CC BY-NC. No commercial re-use. See rights and permissions. Published by BMJ. http://creativecommons.org/licenses/by-nc/4.0/ http://creativecommons.org/licenses/by-nc/4.0/This is an open access article distributed in accordance with the Creative Commons Attribution Non Commercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited, appropriate credit is given, any changes made indicated, and the use is non-commercial. See: http://creativecommons.org/licenses/by-nc/4.0/.
spellingShingle Short Report
Cernile, George
Heritage, Trevor
Sebire, Neil J
Gordon, Ben
Schwering, Taralyn
Kazemlou, Shana
Borecki, Yulia
Network graph representation of COVID-19 scientific publications to aid knowledge discovery
title Network graph representation of COVID-19 scientific publications to aid knowledge discovery
title_full Network graph representation of COVID-19 scientific publications to aid knowledge discovery
title_fullStr Network graph representation of COVID-19 scientific publications to aid knowledge discovery
title_full_unstemmed Network graph representation of COVID-19 scientific publications to aid knowledge discovery
title_short Network graph representation of COVID-19 scientific publications to aid knowledge discovery
title_sort network graph representation of covid-19 scientific publications to aid knowledge discovery
topic Short Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7798427/
https://www.ncbi.nlm.nih.gov/pubmed/33419870
http://dx.doi.org/10.1136/bmjhci-2020-100254
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