Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining

Finding, exploring and filtering frequent sentence-based associations between a disease and a biomedical entity, co-mentioned in disease-related PubMed literature, is a challenge, as the volume of publications increases. Darling is a web application, which utilizes Name Entity Recognition to identif...

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Autores principales: Karatzas, Evangelos, Baltoumas, Fotis A., Kasionis, Ioannis, Sanoudou, Despina, Eliopoulos, Aristides G., Theodosiou, Theodosios, Iliopoulos, Ioannis, Pavlopoulos, Georgios A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9028073/
https://www.ncbi.nlm.nih.gov/pubmed/35454109
http://dx.doi.org/10.3390/biom12040520
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author Karatzas, Evangelos
Baltoumas, Fotis A.
Kasionis, Ioannis
Sanoudou, Despina
Eliopoulos, Aristides G.
Theodosiou, Theodosios
Iliopoulos, Ioannis
Pavlopoulos, Georgios A.
author_facet Karatzas, Evangelos
Baltoumas, Fotis A.
Kasionis, Ioannis
Sanoudou, Despina
Eliopoulos, Aristides G.
Theodosiou, Theodosios
Iliopoulos, Ioannis
Pavlopoulos, Georgios A.
author_sort Karatzas, Evangelos
collection PubMed
description Finding, exploring and filtering frequent sentence-based associations between a disease and a biomedical entity, co-mentioned in disease-related PubMed literature, is a challenge, as the volume of publications increases. Darling is a web application, which utilizes Name Entity Recognition to identify human-related biomedical terms in PubMed articles, mentioned in OMIM, DisGeNET and Human Phenotype Ontology (HPO) disease records, and generates an interactive biomedical entity association network. Nodes in this network represent genes, proteins, chemicals, functions, tissues, diseases, environments and phenotypes. Users can search by identifiers, terms/entities or free text and explore the relevant abstracts in an annotated format.
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spelling pubmed-90280732022-04-23 Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining Karatzas, Evangelos Baltoumas, Fotis A. Kasionis, Ioannis Sanoudou, Despina Eliopoulos, Aristides G. Theodosiou, Theodosios Iliopoulos, Ioannis Pavlopoulos, Georgios A. Biomolecules Article Finding, exploring and filtering frequent sentence-based associations between a disease and a biomedical entity, co-mentioned in disease-related PubMed literature, is a challenge, as the volume of publications increases. Darling is a web application, which utilizes Name Entity Recognition to identify human-related biomedical terms in PubMed articles, mentioned in OMIM, DisGeNET and Human Phenotype Ontology (HPO) disease records, and generates an interactive biomedical entity association network. Nodes in this network represent genes, proteins, chemicals, functions, tissues, diseases, environments and phenotypes. Users can search by identifiers, terms/entities or free text and explore the relevant abstracts in an annotated format. MDPI 2022-03-30 /pmc/articles/PMC9028073/ /pubmed/35454109 http://dx.doi.org/10.3390/biom12040520 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Karatzas, Evangelos
Baltoumas, Fotis A.
Kasionis, Ioannis
Sanoudou, Despina
Eliopoulos, Aristides G.
Theodosiou, Theodosios
Iliopoulos, Ioannis
Pavlopoulos, Georgios A.
Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining
title Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining
title_full Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining
title_fullStr Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining
title_full_unstemmed Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining
title_short Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining
title_sort darling: a web application for detecting disease-related biomedical entity associations with literature mining
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9028073/
https://www.ncbi.nlm.nih.gov/pubmed/35454109
http://dx.doi.org/10.3390/biom12040520
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