Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates

Abstract The COVID-19 pandemic is raging. It revealed the importance of rapid scientific advancement towards understanding and treating new diseases. To address this challenge, we adapt an explainable artificial intelligence algorithm for data fusion and utilize it on new omics data on viral–host in...

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Autores principales:	Carme Zambrana, Alexandros Xenos, René Böttcher, Noël Malod-Dognin, Nataša Pržulj
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/245d217219a24046be298a5c3a9c30f9
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spelling	oai:doaj.org-article:245d217219a24046be298a5c3a9c30f92021-12-02T18:48:02ZNetwork neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates10.1038/s41598-021-98289-x2045-2322https://doaj.org/article/245d217219a24046be298a5c3a9c30f92021-09-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-98289-xhttps://doaj.org/toc/2045-2322Abstract The COVID-19 pandemic is raging. It revealed the importance of rapid scientific advancement towards understanding and treating new diseases. To address this challenge, we adapt an explainable artificial intelligence algorithm for data fusion and utilize it on new omics data on viral–host interactions, human protein interactions, and drugs to better understand SARS-CoV-2 infection mechanisms and predict new drug–target interactions for COVID-19. We discover that in the human interactome, the human proteins targeted by SARS-CoV-2 proteins and the genes that are differentially expressed after the infection have common neighbors central in the interactome that may be key to the disease mechanisms. We uncover 185 new drug–target interactions targeting 49 of these key genes and suggest re-purposing of 149 FDA-approved drugs, including drugs targeting VEGF and nitric oxide signaling, whose pathways coincide with the observed COVID-19 symptoms. Our integrative methodology is universal and can enable insight into this and other serious diseases.Carme ZambranaAlexandros XenosRené BöttcherNoël Malod-DogninNataša PržuljNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-15 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Carme Zambrana Alexandros Xenos René Böttcher Noël Malod-Dognin Nataša Pržulj Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates
description	Abstract The COVID-19 pandemic is raging. It revealed the importance of rapid scientific advancement towards understanding and treating new diseases. To address this challenge, we adapt an explainable artificial intelligence algorithm for data fusion and utilize it on new omics data on viral–host interactions, human protein interactions, and drugs to better understand SARS-CoV-2 infection mechanisms and predict new drug–target interactions for COVID-19. We discover that in the human interactome, the human proteins targeted by SARS-CoV-2 proteins and the genes that are differentially expressed after the infection have common neighbors central in the interactome that may be key to the disease mechanisms. We uncover 185 new drug–target interactions targeting 49 of these key genes and suggest re-purposing of 149 FDA-approved drugs, including drugs targeting VEGF and nitric oxide signaling, whose pathways coincide with the observed COVID-19 symptoms. Our integrative methodology is universal and can enable insight into this and other serious diseases.
format	article
author	Carme Zambrana Alexandros Xenos René Böttcher Noël Malod-Dognin Nataša Pržulj
author_facet	Carme Zambrana Alexandros Xenos René Böttcher Noël Malod-Dognin Nataša Pržulj
author_sort	Carme Zambrana
title	Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates
title_short	Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates
title_full	Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates
title_fullStr	Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates
title_full_unstemmed	Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates
title_sort	network neighbors of viral targets and differentially expressed genes in covid-19 are drug target candidates
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/245d217219a24046be298a5c3a9c30f9
work_keys_str_mv	AT carmezambrana networkneighborsofviraltargetsanddifferentiallyexpressedgenesincovid19aredrugtargetcandidates AT alexandrosxenos networkneighborsofviraltargetsanddifferentiallyexpressedgenesincovid19aredrugtargetcandidates AT renebottcher networkneighborsofviraltargetsanddifferentiallyexpressedgenesincovid19aredrugtargetcandidates AT noelmaloddognin networkneighborsofviraltargetsanddifferentiallyexpressedgenesincovid19aredrugtargetcandidates AT natasaprzulj networkneighborsofviraltargetsanddifferentiallyexpressedgenesincovid19aredrugtargetcandidates
_version_	1718377609842130944

Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates

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