Ribosomal proteins as a possible tool for blocking SARS-COV 2 virus replication for a potential prospective treatment

Rofeal, Marian; El-malek, Fady Abd

doi:10.1016/j.mehy.2020.109904

Cited by 19 publications

(16 citation statements)

References 26 publications

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“…Hence it has been proposed that ribosomal proteins can be targeted for vaccine candidates. 59 Consequently, we performed a drug repurposing analysis to find drugs that can reverse the altered effect of these proteins. The results of this analysis showed that most of the drugs identified exert antiviral activity.…”

Section: Resultsmentioning

confidence: 99%

Comparative transcriptome analysis of SARS-CoV, MERS-CoV, and SARS-CoV-2 to identify potential pathways for drug repurposing

Krishnamoorthy

Raj

Roy³

et al. 2021

Computers in Biology and Medicine

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Section: Resultsmentioning

confidence: 99%

Comparative transcriptome analysis of SARS-CoV, MERS-CoV, and SARS-CoV-2 to identify potential pathways for drug repurposing

Krishnamoorthy

Raj

Roy³

et al. 2021

Computers in Biology and Medicine

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“…Enriched genes such as GBP1 [ Niu et al, 2016 ], USP18 [ Xu et al, 2012 ] and OASL (2′-5′-oligoadenylate synthetase like) [ B. Wang et al, 2018 ] were associated with progression of porcine reproductive and respiratory syndrome viral infection, but these genes may be liable for advancement of SARS-CoV-2 infection. Enriched genes such as STAT1 [ Claverie, 2020 ], P2RX7 [ Di Virgilio et al, 2020 ], TLR4 [ Choudhury and Mukherjee, 2020 ], CCR5 [ Patterson et al, 2020 ], CCL5 [ Patterson et al, 2020 ], JAK2 [ Wu and Yang, 2020 ], IFITM3 [ Hachim et al, 2020 ], TLR7 [ Moreno-Eutimio et al, 2020 ], TLR1 [ Choudhury and Mukherjee, 2020 ], TLR2 [ Choudhury and Mukherjee, 2020 ], RPL9 [ Rofeal and El-Malek, 2020 ] and GPX1 [ Seale et al, 2020 ] were involved in progression of SARS-CoV-2 infection. OAS1 was liable for progression of severe acute respiratory syndrome (SARS) viral infection [ Hamano et al, 2005 ], but this gene may be associated with development of SARS-CoV-2 infection.…”

Section: Discussionmentioning

confidence: 99%

Bioinformatics analyses of significant genes, related pathways, and candidate diagnostic biomarkers and molecular targets in SARS-CoV-2/COVID-19

Vastrad¹,

Vastrad²,

Tengli

2020

Gene Reports

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Severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) infection is a leading cause of pneumonia and death. The aim of this investigation is to identify the key genes in SARS-CoV-2 infection and uncover their potential functions. We downloaded the expression profiling by high throughput sequencing of GSE152075 from the Gene Expression Omnibus database. Normalization of the data from primary SARS-CoV-2 infected samples and negative control samples in the database was conducted using R software. Then, joint analysis of the data was performed. Pathway and Gene ontology (GO) enrichment analyses were performed, and the protein-protein interaction (PPI) network, target gene - miRNA regulatory network, target gene - TF regulatory network of the differentially expressed genes (DEGs) were constructed using Cytoscape software. Identification of diagnostic biomarkers was conducted using receiver operating characteristic (ROC) curve analysis. 994 DEGs (496 up regulated and 498 down regulated genes) were identified. Pathway and GO enrichment analysis showed up and down regulated genes mainly enriched in the NOD-like receptor signaling pathway, Ribosome, response to external biotic stimulus and viral transcription in SARS-CoV-2 infection. Down and up regulated genes were selected to establish the PPI network, modules, target gene - miRNA regulatory network, target gene - TF regulatory network revealed that these genes were involved in adaptive immune system, fluid shear stress and atherosclerosis, influenza A and protein processing in endoplasmic reticulum. In total, ten genes (CBL, ISG15, NEDD4, PML, REL, CTNNB1, ERBB2, JUN, RPS8 and STUB1) were identified as good diagnostic biomarkers. In conclusion, the identified DEGs, hub genes and target genes contribute to the understanding of the molecular mechanisms underlying the advancement of SARS-CoV-2 infection and they may be used as diagnostic and molecular targets for the treatment of patients with SARS-CoV-2 infection in the future.

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“…A large number of ribosomal proteins and viral mRNAs were involved in viral protein biosynthesis, and these proteins were important for viral replication and infection of host cells. RPL 9 and RPL 10 could be used to assess the activity of Covid-19 and even became targets for the development of Covid-19 vaccines and treatments ( 38 ).…”

Section: Discussionmentioning

confidence: 99%

Mechanism of COVID-19-Related Proteins in Spinal Tuberculosis: Immune Dysregulation

Chen

Liu²,

Liang³

et al. 2022

Front. Immunol.

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PurposeThe purpose of this article was to investigate the mechanism of immune dysregulation of COVID-19-related proteins in spinal tuberculosis (STB).MethodsClinical data were collected to construct a nomogram model. C-index, calibration curve, ROC curve, and DCA curve were used to assess the predictive ability and accuracy of the model. Additionally, 10 intervertebral disc samples were collected for protein identification. Bioinformatics was used to analyze differentially expressed proteins (DEPs), including immune cells analysis, Gene Ontology (GO) and KEGG pathway enrichment analysis, and protein-protein interaction networks (PPI).ResultsThe nomogram predicted risk of STB ranging from 0.01 to 0.994. The C-index and AUC in the training set were 0.872 and 0.862, respectively. The results in the external validation set were consistent with the training set. Immune cells scores indicated that B cells naive in STB tissues were significantly lower than non-TB spinal tissues. Hub proteins were calculated by Degree, Closeness, and MCC methods. The main KEGG pathway included Coronavirus disease-COVID-19. There were 9 key proteins in the intersection of COVID-19-related proteins and hub proteins. There was a negative correlation between B cells naive and RPL19. COVID-19-related proteins were associated with immune genes.ConclusionLymphocytes were predictive factors for the diagnosis of STB. Immune cells showed low expression in STB. Nine COVID-19-related proteins were involved in STB mechanisms. These nine key proteins may suppress the immune mechanism of STB by regulating the expression of immune genes.

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Ribosomal proteins as a possible tool for blocking SARS-COV 2 virus replication for a potential prospective treatment

Cited by 19 publications

References 26 publications

Comparative transcriptome analysis of SARS-CoV, MERS-CoV, and SARS-CoV-2 to identify potential pathways for drug repurposing

Comparative transcriptome analysis of SARS-CoV, MERS-CoV, and SARS-CoV-2 to identify potential pathways for drug repurposing

Bioinformatics analyses of significant genes, related pathways, and candidate diagnostic biomarkers and molecular targets in SARS-CoV-2/COVID-19

Mechanism of COVID-19-Related Proteins in Spinal Tuberculosis: Immune Dysregulation

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