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Prediction of African Swine Fever Virus Inhibitors by Molecular Docking-Driven Machine Learning Models

African swine fever virus (ASFV) causes a highly contagious and severe hemorrhagic viral disease with high mortality in domestic pigs of all ages. Although the virus is harmless to humans, the ongoing ASFV epidemic could have severe economic consequences for global food security. Recent studies have...

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Autores principales: Choi, Jiwon, Yun, Jun Seop, Song, Hyeeun, Shin, Yong-Keol, Kang, Young-Hoon, Munashingha, Palinda Ruvan, Yoon, Jeongyeon, Kim, Nam Hee, Kim, Hyun Sil, Yook, Jong In, Tark, Dongseob, Lim, Yun-Sook, Hwang, Soon B.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8231271/
https://www.ncbi.nlm.nih.gov/pubmed/34208385
http://dx.doi.org/10.3390/molecules26123592
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author Choi, Jiwon
Yun, Jun Seop
Song, Hyeeun
Shin, Yong-Keol
Kang, Young-Hoon
Munashingha, Palinda Ruvan
Yoon, Jeongyeon
Kim, Nam Hee
Kim, Hyun Sil
Yook, Jong In
Tark, Dongseob
Lim, Yun-Sook
Hwang, Soon B.
author_facet Choi, Jiwon
Yun, Jun Seop
Song, Hyeeun
Shin, Yong-Keol
Kang, Young-Hoon
Munashingha, Palinda Ruvan
Yoon, Jeongyeon
Kim, Nam Hee
Kim, Hyun Sil
Yook, Jong In
Tark, Dongseob
Lim, Yun-Sook
Hwang, Soon B.
author_sort Choi, Jiwon
collection PubMed
description African swine fever virus (ASFV) causes a highly contagious and severe hemorrhagic viral disease with high mortality in domestic pigs of all ages. Although the virus is harmless to humans, the ongoing ASFV epidemic could have severe economic consequences for global food security. Recent studies have found a few antiviral agents that can inhibit ASFV infections. However, currently, there are no vaccines or antiviral drugs. Hence, there is an urgent need to identify new drugs to treat ASFV. Based on the structural information data on the targets of ASFV, we used molecular docking and machine learning models to identify novel antiviral agents. We confirmed that compounds with high affinity present in the region of interest belonged to subsets in the chemical space using principal component analysis and k-means clustering in molecular docking studies of FDA-approved drugs. These methods predicted pentagastrin as a potential antiviral drug against ASFVs. Finally, it was also observed that the compound had an inhibitory effect on AsfvPolX activity. Results from the present study suggest that molecular docking and machine learning models can play an important role in identifying potential antiviral drugs against ASFVs.
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spelling pubmed-82312712021-06-26 Prediction of African Swine Fever Virus Inhibitors by Molecular Docking-Driven Machine Learning Models Choi, Jiwon Yun, Jun Seop Song, Hyeeun Shin, Yong-Keol Kang, Young-Hoon Munashingha, Palinda Ruvan Yoon, Jeongyeon Kim, Nam Hee Kim, Hyun Sil Yook, Jong In Tark, Dongseob Lim, Yun-Sook Hwang, Soon B. Molecules Article African swine fever virus (ASFV) causes a highly contagious and severe hemorrhagic viral disease with high mortality in domestic pigs of all ages. Although the virus is harmless to humans, the ongoing ASFV epidemic could have severe economic consequences for global food security. Recent studies have found a few antiviral agents that can inhibit ASFV infections. However, currently, there are no vaccines or antiviral drugs. Hence, there is an urgent need to identify new drugs to treat ASFV. Based on the structural information data on the targets of ASFV, we used molecular docking and machine learning models to identify novel antiviral agents. We confirmed that compounds with high affinity present in the region of interest belonged to subsets in the chemical space using principal component analysis and k-means clustering in molecular docking studies of FDA-approved drugs. These methods predicted pentagastrin as a potential antiviral drug against ASFVs. Finally, it was also observed that the compound had an inhibitory effect on AsfvPolX activity. Results from the present study suggest that molecular docking and machine learning models can play an important role in identifying potential antiviral drugs against ASFVs. MDPI 2021-06-11 /pmc/articles/PMC8231271/ /pubmed/34208385 http://dx.doi.org/10.3390/molecules26123592 Text en © 2021 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
Choi, Jiwon
Yun, Jun Seop
Song, Hyeeun
Shin, Yong-Keol
Kang, Young-Hoon
Munashingha, Palinda Ruvan
Yoon, Jeongyeon
Kim, Nam Hee
Kim, Hyun Sil
Yook, Jong In
Tark, Dongseob
Lim, Yun-Sook
Hwang, Soon B.
Prediction of African Swine Fever Virus Inhibitors by Molecular Docking-Driven Machine Learning Models
title Prediction of African Swine Fever Virus Inhibitors by Molecular Docking-Driven Machine Learning Models
title_full Prediction of African Swine Fever Virus Inhibitors by Molecular Docking-Driven Machine Learning Models
title_fullStr Prediction of African Swine Fever Virus Inhibitors by Molecular Docking-Driven Machine Learning Models
title_full_unstemmed Prediction of African Swine Fever Virus Inhibitors by Molecular Docking-Driven Machine Learning Models
title_short Prediction of African Swine Fever Virus Inhibitors by Molecular Docking-Driven Machine Learning Models
title_sort prediction of african swine fever virus inhibitors by molecular docking-driven machine learning models
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8231271/
https://www.ncbi.nlm.nih.gov/pubmed/34208385
http://dx.doi.org/10.3390/molecules26123592
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