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AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature
Anthrax is a zoonotic infectious disease caused by Bacillus anthracis (anthrax bacterium) that affects not only domestic and wild animals worldwide but also human health. As the study develops in-depth, a large quantity of related biomedical publications emerge. Acquiring knowledge from the literatu...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9216567/ https://www.ncbi.nlm.nih.gov/pubmed/35653350 http://dx.doi.org/10.1093/database/baac037 |
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author | Feng, Baiyang Gao, Jing |
author_facet | Feng, Baiyang Gao, Jing |
author_sort | Feng, Baiyang |
collection | PubMed |
description | Anthrax is a zoonotic infectious disease caused by Bacillus anthracis (anthrax bacterium) that affects not only domestic and wild animals worldwide but also human health. As the study develops in-depth, a large quantity of related biomedical publications emerge. Acquiring knowledge from the literature is essential for gaining insight into anthrax etiology, diagnosis, treatment and research. In this study, we used a set of text mining tools to identify nearly 14 000 entities of 29 categories, such as genes, diseases, chemicals, species, vaccines and proteins, from nearly 8000 anthrax biomedical literature and extracted 281 categories of association relationships among the entities. We curated Anthrax-related Entities Dictionary and Anthrax Ontology. We formed Anthrax Knowledge Graph (AnthraxKG) containing more than 6000 nodes, 6000 edges and 32 000 properties. An interactive visualized Anthrax Knowledge Portal(AnthraxKP) was also developed based on AnthraxKG by using Web technology. AnthraxKP in this study provides rich and authentic relevant knowledge in many forms, which can help researchers carry out research more efficiently. Database URL: AnthraxKP is permitted users to query and download data at http://139.224.212.120:18095/. |
format | Online Article Text |
id | pubmed-9216567 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-92165672022-06-23 AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature Feng, Baiyang Gao, Jing Database (Oxford) Original Article Anthrax is a zoonotic infectious disease caused by Bacillus anthracis (anthrax bacterium) that affects not only domestic and wild animals worldwide but also human health. As the study develops in-depth, a large quantity of related biomedical publications emerge. Acquiring knowledge from the literature is essential for gaining insight into anthrax etiology, diagnosis, treatment and research. In this study, we used a set of text mining tools to identify nearly 14 000 entities of 29 categories, such as genes, diseases, chemicals, species, vaccines and proteins, from nearly 8000 anthrax biomedical literature and extracted 281 categories of association relationships among the entities. We curated Anthrax-related Entities Dictionary and Anthrax Ontology. We formed Anthrax Knowledge Graph (AnthraxKG) containing more than 6000 nodes, 6000 edges and 32 000 properties. An interactive visualized Anthrax Knowledge Portal(AnthraxKP) was also developed based on AnthraxKG by using Web technology. AnthraxKP in this study provides rich and authentic relevant knowledge in many forms, which can help researchers carry out research more efficiently. Database URL: AnthraxKP is permitted users to query and download data at http://139.224.212.120:18095/. Oxford University Press 2022-06-02 /pmc/articles/PMC9216567/ /pubmed/35653350 http://dx.doi.org/10.1093/database/baac037 Text en © The Author(s) 2022. Published by Oxford University Press. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Original Article Feng, Baiyang Gao, Jing AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature |
title | AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature |
title_full | AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature |
title_fullStr | AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature |
title_full_unstemmed | AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature |
title_short | AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature |
title_sort | anthraxkp: a knowledge graph-based, anthrax knowledge portal mined from biomedical literature |
topic | Original Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9216567/ https://www.ncbi.nlm.nih.gov/pubmed/35653350 http://dx.doi.org/10.1093/database/baac037 |
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