29 August 2022>: Database Analysis
Transcriptome Analysis of Peripheral Blood Mononuclear Cells Response in Patients with Severe COVID-19 Reveals Crucial Genes Regulating Protein UbiquitinationJinfeng Huang 1ABCDEF* , Ruobing Li 2EF* , Jie Cheng 3B* , Peilin Zhen 1AB*
Med Sci Monit 2022; 28:e937532
Figure 1 Diagrammatic representation of the overall general process flow of this study showing the RNA sequencing (RNA-Seq) datasets of 4 patients with severe COVID-19 and 4 healthy controls, from whom peripheral blood samples were obtained from GSE167930. Then, the raw data were processed to identify the differentially expressed gene (DEGs). We used these DEGs for Gene Ontology and pathway analysis and protein–protein interaction (PPI) analysis. The most significant gene cluster in the PPI network was identified and used for biological process enrichment analysis. Genes in this cluster were found to play a role in protein ubiquitination. Then, the analysis of genes involved in protein ubiquitination was performed to identify the network of protein-chemical interactions for potent chemical agents, as well as transcription factors and microRNAs at regulatory checkpoints. Ultimately, single-cell RNA-Seq analysis of an online dataset was carried out to reveal the expression of the genes regulating protein ubiquitination that is specific to different cell types.