NETME: on-the-fly knowledge network construction from biomedical literature

BACKGROUND: The rapidly increasing biological literature is a key resource to automatically extract and gain knowledge concerning biological elements and their relations. Knowledge Networks are helpful tools in the context of biological knowledge discovery and modeling. RESULTS: We introduce a novel...

Descripción completa

Detalles Bibliográficos
Autores principales: Muscolino, Alessandro, Di Maria, Antonio, Rapicavoli, Rosaria Valentina, Alaimo, Salvatore, Bellomo, Lorenzo, Billeci, Fabrizio, Borzì, Stefano, Ferragina, Paolo, Ferro, Alfredo, Pulvirenti, Alfredo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer International Publishing 2022
Materias:
Research
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8733431/
https://www.ncbi.nlm.nih.gov/pubmed/35013714
http://dx.doi.org/10.1007/s41109-021-00435-x
_version_ 1784627803363213312
author Muscolino, Alessandro
Di Maria, Antonio
Rapicavoli, Rosaria Valentina
Alaimo, Salvatore
Bellomo, Lorenzo
Billeci, Fabrizio
Borzì, Stefano
Ferragina, Paolo
Ferro, Alfredo
Pulvirenti, Alfredo
author_facet Muscolino, Alessandro
Di Maria, Antonio
Rapicavoli, Rosaria Valentina
Alaimo, Salvatore
Bellomo, Lorenzo
Billeci, Fabrizio
Borzì, Stefano
Ferragina, Paolo
Ferro, Alfredo
Pulvirenti, Alfredo
author_sort Muscolino, Alessandro
collection PubMed
description BACKGROUND: The rapidly increasing biological literature is a key resource to automatically extract and gain knowledge concerning biological elements and their relations. Knowledge Networks are helpful tools in the context of biological knowledge discovery and modeling. RESULTS: We introduce a novel system called NETME, which, starting from a set of full-texts obtained from PubMed, through an easy-to-use web interface, interactively extracts biological elements from ontological databases and then synthesizes a network inferring relations among such elements. The results clearly show that our tool is capable of inferring comprehensive and reliable biological networks. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s41109-021-00435-x.
format Online
Article
Text
id pubmed-8733431
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Springer International Publishing
record_format MEDLINE/PubMed
spelling pubmed-87334312022-01-06 NETME: on-the-fly knowledge network construction from biomedical literature Muscolino, Alessandro Di Maria, Antonio Rapicavoli, Rosaria Valentina Alaimo, Salvatore Bellomo, Lorenzo Billeci, Fabrizio Borzì, Stefano Ferragina, Paolo Ferro, Alfredo Pulvirenti, Alfredo Appl Netw Sci Research BACKGROUND: The rapidly increasing biological literature is a key resource to automatically extract and gain knowledge concerning biological elements and their relations. Knowledge Networks are helpful tools in the context of biological knowledge discovery and modeling. RESULTS: We introduce a novel system called NETME, which, starting from a set of full-texts obtained from PubMed, through an easy-to-use web interface, interactively extracts biological elements from ontological databases and then synthesizes a network inferring relations among such elements. The results clearly show that our tool is capable of inferring comprehensive and reliable biological networks. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s41109-021-00435-x. Springer International Publishing 2022-01-06 2022 /pmc/articles/PMC8733431/ /pubmed/35013714 http://dx.doi.org/10.1007/s41109-021-00435-x Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Research
Muscolino, Alessandro
Di Maria, Antonio
Rapicavoli, Rosaria Valentina
Alaimo, Salvatore
Bellomo, Lorenzo
Billeci, Fabrizio
Borzì, Stefano
Ferragina, Paolo
Ferro, Alfredo
Pulvirenti, Alfredo
NETME: on-the-fly knowledge network construction from biomedical literature
title NETME: on-the-fly knowledge network construction from biomedical literature
title_full NETME: on-the-fly knowledge network construction from biomedical literature
title_fullStr NETME: on-the-fly knowledge network construction from biomedical literature
title_full_unstemmed NETME: on-the-fly knowledge network construction from biomedical literature
title_short NETME: on-the-fly knowledge network construction from biomedical literature
title_sort netme: on-the-fly knowledge network construction from biomedical literature
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8733431/
https://www.ncbi.nlm.nih.gov/pubmed/35013714
http://dx.doi.org/10.1007/s41109-021-00435-x
work_keys_str_mv AT muscolinoalessandro netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT dimariaantonio netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT rapicavolirosariavalentina netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT alaimosalvatore netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT bellomolorenzo netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT billecifabrizio netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT borzistefano netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT ferraginapaolo netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT ferroalfredo netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature
AT pulvirentialfredo netmeontheflyknowledgenetworkconstructionfrombiomedicalliterature

Ejemplares similares