Network analytics for drug repurposing in COVID-19

Nicoleta Siminea; Victor Popescu; Jose Angel Sanchez Martin; Daniela Florea; Georgiana Gavril; Ana-Maria Gheorghe; Corina Iţcuş; Krishna Kanhaiya; Octavian Pacioglu; Laura Ioana Popa; Romica Trandafir; Maria Iris Tusa; Manuela Sidoroff; Mihaela Pãun; Eugen Czeizler; Andrei Pãun; Ion Petre

doi:10.1093/bib/bbab490

Network analytics for drug repurposing in COVID-19

Nicoleta Siminea, Victor Popescu, Jose Angel Sanchez Martin, Daniela Florea, Georgiana Gavril, Ana-Maria Gheorghe, Corina Iţcuş, Krishna Kanhaiya, Octavian Pacioglu, Laura Ioana Popa, Romica Trandafir, Maria Iris Tusa, Manuela Sidoroff, Mihaela Pãun, Eugen Czeizler, Andrei Pãun, Ion Petre^*

^*Corresponding author for this work

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Abstract

To better understand the potential of drug repurposing in COVID-19, we analyzed control strategies over essential host factors for SARS-CoV-2 infection. We constructed comprehensive directed protein-protein interaction (PPI) networks integrating the top-ranked host factors, the drug target proteins and directed PPI data. We analyzed the networks to identify drug targets and combinations thereof that offer efficient control over the host factors. We validated our findings against clinical studies data and bioinformatics studies. Our method offers a new insight into the molecular details of the disease and into potentially new therapy targets for it. Our approach for drug repurposing is significant beyond COVID-19 and may be applied also to other diseases.

Original language	English
Article number	bbab490
Journal	Briefings in Bioinformatics
Volume	23
Issue number	1
DOIs	https://doi.org/10.1093/bib/bbab490
Publication status	Published - 1 Jan 2022
MoE publication type	A1 Journal article-refereed

Keywords

COVID-19
drug repurposing
host factors
network biology
network controllability

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10.1093/bib/bbab490

bbab490Final published version, 1.34 MBLicence: CC BY

https://urn.fi/URN:NBN:fi-fe2023021527257

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Siminea, N., Popescu, V., Martin, J. A. S., Florea, D., Gavril, G., Gheorghe, A.-M., Iţcuş, C., Kanhaiya, K., Pacioglu, O., Popa, L. I., Trandafir, R., Tusa, M. I., Sidoroff, M., Pãun, M., Czeizler, E., Pãun, A., & Petre, I. (2022). Network analytics for drug repurposing in COVID-19. Briefings in Bioinformatics, 23(1), Article bbab490. https://doi.org/10.1093/bib/bbab490

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title = "Network analytics for drug repurposing in COVID-19",

abstract = "To better understand the potential of drug repurposing in COVID-19, we analyzed control strategies over essential host factors for SARS-CoV-2 infection. We constructed comprehensive directed protein-protein interaction (PPI) networks integrating the top-ranked host factors, the drug target proteins and directed PPI data. We analyzed the networks to identify drug targets and combinations thereof that offer efficient control over the host factors. We validated our findings against clinical studies data and bioinformatics studies. Our method offers a new insight into the molecular details of the disease and into potentially new therapy targets for it. Our approach for drug repurposing is significant beyond COVID-19 and may be applied also to other diseases.",

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author = "Nicoleta Siminea and Victor Popescu and Martin, {Jose Angel Sanchez} and Daniela Florea and Georgiana Gavril and Ana-Maria Gheorghe and Corina I{\c t}cu{\c s} and Krishna Kanhaiya and Octavian Pacioglu and Popa, {Laura Ioana} and Romica Trandafir and Tusa, {Maria Iris} and Manuela Sidoroff and Mihaela P{\~a}un and Eugen Czeizler and Andrei P{\~a}un and Ion Petre",

note = "Funding Information: Romanian Ministry of Education and Research, CCCDIUEFISCDI [PNIII-P2-2.1-PED-2019-2391 to I.P.]. Publisher Copyright: {\textcopyright} The Author(s) 2021. Published by Oxford University Press.",

year = "2022",

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doi = "10.1093/bib/bbab490",

language = "English",

volume = "23",

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AU - Siminea, Nicoleta

AU - Popescu, Victor

AU - Martin, Jose Angel Sanchez

AU - Florea, Daniela

AU - Gavril, Georgiana

AU - Gheorghe, Ana-Maria

AU - Iţcuş, Corina

AU - Kanhaiya, Krishna

AU - Pacioglu, Octavian

AU - Popa, Laura Ioana

AU - Trandafir, Romica

AU - Tusa, Maria Iris

AU - Sidoroff, Manuela

AU - Pãun, Mihaela

AU - Czeizler, Eugen

AU - Pãun, Andrei

AU - Petre, Ion

N1 - Funding Information: Romanian Ministry of Education and Research, CCCDIUEFISCDI [PNIII-P2-2.1-PED-2019-2391 to I.P.]. Publisher Copyright: © The Author(s) 2021. Published by Oxford University Press.

PY - 2022/1/1

Y1 - 2022/1/1

N2 - To better understand the potential of drug repurposing in COVID-19, we analyzed control strategies over essential host factors for SARS-CoV-2 infection. We constructed comprehensive directed protein-protein interaction (PPI) networks integrating the top-ranked host factors, the drug target proteins and directed PPI data. We analyzed the networks to identify drug targets and combinations thereof that offer efficient control over the host factors. We validated our findings against clinical studies data and bioinformatics studies. Our method offers a new insight into the molecular details of the disease and into potentially new therapy targets for it. Our approach for drug repurposing is significant beyond COVID-19 and may be applied also to other diseases.

AB - To better understand the potential of drug repurposing in COVID-19, we analyzed control strategies over essential host factors for SARS-CoV-2 infection. We constructed comprehensive directed protein-protein interaction (PPI) networks integrating the top-ranked host factors, the drug target proteins and directed PPI data. We analyzed the networks to identify drug targets and combinations thereof that offer efficient control over the host factors. We validated our findings against clinical studies data and bioinformatics studies. Our method offers a new insight into the molecular details of the disease and into potentially new therapy targets for it. Our approach for drug repurposing is significant beyond COVID-19 and may be applied also to other diseases.

KW - COVID-19

KW - drug repurposing

KW - host factors

KW - network biology

KW - network controllability

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JO - Briefings in Bioinformatics

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Network analytics for drug repurposing in COVID-19

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Keywords

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