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Drug discovery through Covid-19 genome sequencing with siamese graph convolutional neural network

After several waves of COVID-19 led to a massive loss of human life worldwide due to the changes in its variants and the vast explosion. Several researchers proposed neural network-based drug discovery techniques to fight against the pandemic; utilizing neural networks has limitations (Exponential t...

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Autores principales: Pati, Soumen Kumar, Gupta, Manan Kumar, Banerjee, Ayan, Shai, Rinita, Shivakumara, Palaiahnakote
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer US 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10170456/
https://www.ncbi.nlm.nih.gov/pubmed/37362739
http://dx.doi.org/10.1007/s11042-023-15270-8
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author Pati, Soumen Kumar
Gupta, Manan Kumar
Banerjee, Ayan
Shai, Rinita
Shivakumara, Palaiahnakote
author_facet Pati, Soumen Kumar
Gupta, Manan Kumar
Banerjee, Ayan
Shai, Rinita
Shivakumara, Palaiahnakote
author_sort Pati, Soumen Kumar
collection PubMed
description After several waves of COVID-19 led to a massive loss of human life worldwide due to the changes in its variants and the vast explosion. Several researchers proposed neural network-based drug discovery techniques to fight against the pandemic; utilizing neural networks has limitations (Exponential time complexity, Non-Convergence, Mode Collapse, and Diminished Gradient). To overcome those difficulties, this paper proposed a hybrid architecture that will help to repurpose the most appropriate medicines for the treatment of COVID-19. A brief investigation of the sequences has been made to discover the gene density and noncoding proportion through the next gene sequencing. The paper tracks the exceptional locales in the virus DNA sequence as a Drug Target Region (DTR). Then the variable DNA neighborhood search is applied to this DTR to obtain the DNA interaction network to show how the genes are correlated. A drug database has been obtained based on the ontological property of the genomes with advanced D3Similarity so that all the chemical components of the drug database have been identified. Other methods obtained hydroxychloroquine as an effective drug which was rejected by WHO. However, The experimental results show that Remdesivir and Dexamethasone are the most effective drugs, with 97.41 and 97.93%, respectively.
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spelling pubmed-101704562023-05-11 Drug discovery through Covid-19 genome sequencing with siamese graph convolutional neural network Pati, Soumen Kumar Gupta, Manan Kumar Banerjee, Ayan Shai, Rinita Shivakumara, Palaiahnakote Multimed Tools Appl Article After several waves of COVID-19 led to a massive loss of human life worldwide due to the changes in its variants and the vast explosion. Several researchers proposed neural network-based drug discovery techniques to fight against the pandemic; utilizing neural networks has limitations (Exponential time complexity, Non-Convergence, Mode Collapse, and Diminished Gradient). To overcome those difficulties, this paper proposed a hybrid architecture that will help to repurpose the most appropriate medicines for the treatment of COVID-19. A brief investigation of the sequences has been made to discover the gene density and noncoding proportion through the next gene sequencing. The paper tracks the exceptional locales in the virus DNA sequence as a Drug Target Region (DTR). Then the variable DNA neighborhood search is applied to this DTR to obtain the DNA interaction network to show how the genes are correlated. A drug database has been obtained based on the ontological property of the genomes with advanced D3Similarity so that all the chemical components of the drug database have been identified. Other methods obtained hydroxychloroquine as an effective drug which was rejected by WHO. However, The experimental results show that Remdesivir and Dexamethasone are the most effective drugs, with 97.41 and 97.93%, respectively. Springer US 2023-05-10 /pmc/articles/PMC10170456/ /pubmed/37362739 http://dx.doi.org/10.1007/s11042-023-15270-8 Text en © The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature 2023, Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law. This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.
spellingShingle Article
Pati, Soumen Kumar
Gupta, Manan Kumar
Banerjee, Ayan
Shai, Rinita
Shivakumara, Palaiahnakote
Drug discovery through Covid-19 genome sequencing with siamese graph convolutional neural network
title Drug discovery through Covid-19 genome sequencing with siamese graph convolutional neural network
title_full Drug discovery through Covid-19 genome sequencing with siamese graph convolutional neural network
title_fullStr Drug discovery through Covid-19 genome sequencing with siamese graph convolutional neural network
title_full_unstemmed Drug discovery through Covid-19 genome sequencing with siamese graph convolutional neural network
title_short Drug discovery through Covid-19 genome sequencing with siamese graph convolutional neural network
title_sort drug discovery through covid-19 genome sequencing with siamese graph convolutional neural network
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10170456/
https://www.ncbi.nlm.nih.gov/pubmed/37362739
http://dx.doi.org/10.1007/s11042-023-15270-8
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