SARS-CoV-2-induced phosphorylation and its pharmacotherapy backed by artificial intelligence and machine learning
- PMID: 38827795
- PMCID: PMC11140666
- DOI: 10.2144/fsoa-2023-0112
SARS-CoV-2-induced phosphorylation and its pharmacotherapy backed by artificial intelligence and machine learning
Abstract
Aims: To investigate the role of phosphorylation in SARS-CoV-2 infection, potential therapeutic targets and its harmful genetic sequences. Materials & Methods: Data mining techniques were employed to identify upregulated kinases responsible for proteomic changes induced by SARS-CoV-2. Spike and nucleocapsid proteins' sequences were analyzed using predictive tools, including SNAP2, MutPred2, PhD-SNP, SNPs&Go, MetaSNP, Predict-SNP and PolyPhen-2. Missense variants were identified using ensemble-based algorithms and homology/structure-based models like SIFT, PROVEAN, Predict-SNP and MutPred-2. Results: Eight missense variants were identified in viral sequences. Four damaging variants were found, with SNPs&Go and PolyPhen-2. Promising therapeutic candidates, including gilteritinib, pictilisib, sorafenib, RO5126766 and omipalisib, were identified. Conclusion: This research offers insights into SARS-CoV-2 pathogenicity, highlighting potential treatments and harmful variants in viral proteins.
Keywords: monoclonal antibodies; nucleocapsid protein; phosphorylation; proteomics; spike protein.
Plain language summary
This study explores the process called phosphorylation, which involves adding phosphate groups to certain proteins, influences the way the SARS-CoV-2 virus causes disease. The virus manipulates host enzymes to help it spread and survive. Researchers used data analysis techniques to identify the proteins that play a role in this process, aiming to find potential targets for treatments. They analyzed genetic sequences of key virus proteins and used various tools to predict harmful mutations. The study found several promising compounds that could be used to target the virus. Further research and experiments are needed to confirm their effectiveness as COVID-19 treatments.
© 2024 Saad Salman.
Conflict of interest statement
The authors have no competing interests or relevant affiliations with any organization or entity with the subject matter or materials discussed in the manuscript. This includes employment, consultancies, honoraria, stock ownership or options, expert testimony, grants or patents received or pending, or royalties.
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•• The global phosphorylation landscape of SARS-CoV-2 infection sheds light on how this virus modulates host cell phosphorylation processes and it is crucial for unraveling the intricate mechanisms of viral pathogenesis. Phosphorylation is a key cellular process involving the addition of phosphate groups to proteins, often playing a pivotal role in signal transduction and regulating various cellular functions. SARS-CoV-2's interaction with host cell phosphorylation pathways can shed light on how the virus hijacks cellular machinery, influences immune responses, and establishes infection. Investigating this landscape provides valuable insights into potential drug targets and therapeutic strategies.
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