tetano
Editor, Senior Moderator
Biochem Genet
. 2024 Apr 24.
doi: 10.1007/s10528-024-10802-9. Online ahead of print. Identification of Age-Related Characteristic Genes Involved in Severe COVID-19 Infection Among Elderly Patients Using Machine Learning and Immune Cell Infiltration Analysis
Huan Li[SUP] #[/SUP][SUP] 1 2 [/SUP], Jin Zhao[SUP] #[/SUP][SUP] 1 3 [/SUP], Yan Xing[SUP] 3 [/SUP], Jia Chen[SUP] 4 [/SUP], Ziying Wen[SUP] 4 [/SUP], Rui Ma[SUP] 1 [/SUP], Fengxia Han[SUP] 1 [/SUP], Boyong Huang[SUP] 1 [/SUP], Hao Wang[SUP] 1 [/SUP], Cui Li[SUP] 1 [/SUP], Yang Chen[SUP] 1 [/SUP], Xiaoxuan Ning[SUP] 5 [/SUP]
Affiliations
Elderly patients infected with severe acute respiratory syndrome coronavirus 2 are at higher risk of severe clinical manifestation, extended hospitalization, and increased mortality. Those patients are more likely to experience persistent symptoms and exacerbate the condition of basic diseases with long COVID-19 syndrome. However, the molecular mechanisms underlying severe COVID-19 in the elderly patients remain unclear. Our study aims to investigate the function of the interaction between disease-characteristic genes and immune cell infiltration in patients with severe COVID-19 infection. COVID-19 datasets (GSE164805 and GSE180594) and aging dataset (GSE69832) were obtained from the Gene Expression Omnibus database. The combined different expression genes (DEGs) were subjected to Gene Ontology (GO) functional enrichment analysis, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and Diseases Ontology functional enrichment analysis, Gene Set Enrichment Analysis, machine learning, and immune cell infiltration analysis. GO and KEGG enrichment analyses revealed that the eight DEGs (IL23A, PTGER4, PLCB1, IL1B, CXCR1, C1QB, MX2, ALOX12) were mainly involved in inflammatory mediator regulation of TRP channels, coronavirus disease-COVID-19, and cytokine activity signaling pathways. Three-degree algorithm (LASSO, SVM-RFE, KNN) and correlation analysis showed that the five DEGs up-regulated the immune cells of macrophages M0/M1, memory B cells, gamma delta T cell, dendritic cell resting, and master cell resisting. Our study identified five hallmark genes that can serve as disease-characteristic genes and target immune cells infiltrated in severe COVID-19 patients among the elderly population, which may contribute to the study of pathogenesis and the evaluation of diagnosis and prognosis in aging patients infected with severe COVID-19.
Keywords: Aging; COVID-19; Differentially expressed genes; Immune cell infiltration; Machine learning.
. 2024 Apr 24.
doi: 10.1007/s10528-024-10802-9. Online ahead of print. Identification of Age-Related Characteristic Genes Involved in Severe COVID-19 Infection Among Elderly Patients Using Machine Learning and Immune Cell Infiltration Analysis
Huan Li[SUP] #[/SUP][SUP] 1 2 [/SUP], Jin Zhao[SUP] #[/SUP][SUP] 1 3 [/SUP], Yan Xing[SUP] 3 [/SUP], Jia Chen[SUP] 4 [/SUP], Ziying Wen[SUP] 4 [/SUP], Rui Ma[SUP] 1 [/SUP], Fengxia Han[SUP] 1 [/SUP], Boyong Huang[SUP] 1 [/SUP], Hao Wang[SUP] 1 [/SUP], Cui Li[SUP] 1 [/SUP], Yang Chen[SUP] 1 [/SUP], Xiaoxuan Ning[SUP] 5 [/SUP]
Affiliations
- PMID: 38656671
- DOI: 10.1007/s10528-024-10802-9
Elderly patients infected with severe acute respiratory syndrome coronavirus 2 are at higher risk of severe clinical manifestation, extended hospitalization, and increased mortality. Those patients are more likely to experience persistent symptoms and exacerbate the condition of basic diseases with long COVID-19 syndrome. However, the molecular mechanisms underlying severe COVID-19 in the elderly patients remain unclear. Our study aims to investigate the function of the interaction between disease-characteristic genes and immune cell infiltration in patients with severe COVID-19 infection. COVID-19 datasets (GSE164805 and GSE180594) and aging dataset (GSE69832) were obtained from the Gene Expression Omnibus database. The combined different expression genes (DEGs) were subjected to Gene Ontology (GO) functional enrichment analysis, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and Diseases Ontology functional enrichment analysis, Gene Set Enrichment Analysis, machine learning, and immune cell infiltration analysis. GO and KEGG enrichment analyses revealed that the eight DEGs (IL23A, PTGER4, PLCB1, IL1B, CXCR1, C1QB, MX2, ALOX12) were mainly involved in inflammatory mediator regulation of TRP channels, coronavirus disease-COVID-19, and cytokine activity signaling pathways. Three-degree algorithm (LASSO, SVM-RFE, KNN) and correlation analysis showed that the five DEGs up-regulated the immune cells of macrophages M0/M1, memory B cells, gamma delta T cell, dendritic cell resting, and master cell resisting. Our study identified five hallmark genes that can serve as disease-characteristic genes and target immune cells infiltrated in severe COVID-19 patients among the elderly population, which may contribute to the study of pathogenesis and the evaluation of diagnosis and prognosis in aging patients infected with severe COVID-19.
Keywords: Aging; COVID-19; Differentially expressed genes; Immune cell infiltration; Machine learning.