Published online Nov 26, 2022. doi: 10.12998/wjcc.v10.i33.12116
Peer-review started: July 26, 2022
First decision: September 26, 2022
Revised: September 27, 2022
Accepted: October 27, 2022
Article in press: October 27, 2022
Published online: November 26, 2022
Single-cell RNA sequencing (scRNA-seq) can be used to rapidly obtain the precise gene expression patterns of thousands of cells in the intestine, analyze the characteristics of cells with the same phenotype, and provide new insights into the growth and development of intestinal organs, the clonal evolution of cells, and immune cell changes. These findings can provide new ideas for the diagnosis and treatment of intestinal diseases.
To reveal diagnostic markers of ulcerative colitis (UC) with the aim of providing experimental research ideas and a theoretical basis for the discovery of new UC molecular mechanisms and therapeutic drugs.
To identify clinical phenotypes and biomarkers that could predict the response of UC patients to specific therapeutic drugs and thus aid the diagnosis and treatment of UC.
Using the Gene Expression Omnibus database, through scRNA-seq analysis, least absolute shrinkage and selection operator (LASSO) diagnostic model building and weighted gene correlation network analysis (WGCNA), we analyzed peripheral blood cell subtypes of patients with UC by scRNA-seq combined with bulk RNA sequencing (RNA-seq) to reveal the core genes of UC.
After processing the scRNA-seq data, we obtained data from approximately 24340 cells and identified 17-cell types. Through intercellular communication analysis, we selected monocyte marker genes as the candidate gene set for the prediction model. Construction of a WGCNA coexpression network identified RhoB, cathepsin D (CTSD) and zyxin (ZYX) as core genes. Immune infiltration analysis showed that these three core genes were strongly correlated with immune cells. Functional enrichment analysis showed that the differentially expressed genes were closely related to immune and inflammatory responses, which are associated with many challenges with the diagnosis and treatment of UC.
Through scRNA-seq, LASSO diagnostic model building and WGCNA, we identified RhoB, CTSD and ZYX as core genes of UC that are closely related to monocyte infiltration and could be used as diagnostic markers and potential molecular targets for UC therapeutic intervention.
Single-cell RNA-seq combined with bulk RNA-seq analysis of peripheral blood reveals the characteristics and key immune cell genes of UC.