International journal of genomics
Revealing the Diagnostic Potential of Three RHO GTPase-Related Genes in Osteoarthritis Based on Single-Cell RNA Sequencing and GEO Dataset Analysis
By Zou G, Wang X and Yu J.
Abstract
Background
Osteoarthritis (OA) is becoming increasingly common, and RHO GTPase family members have been implicated in inflammatory processes associated with OA. We therefore examined the diagnostic utility of RHO GTPase-related genes (RGPRGs) in OA.
Methods
The OA expression datasets were collected from public repositories, whereas RGPRGs were assembled from published literature. In the training cohort, we first performed differential expression analysis to screen for differentially expressed genes (DEGs) between OA and control samples. RHO GTPase-related DEGs were obtained by intersecting the DEG list with the RGPRG set, followed by feature selection with the Boruta and XGBoost algorithms. Candidate biomarkers were further evaluated by receiver operating characteristic (ROC) analysis and cross-dataset expression validation. The selected biomarkers were used to establish and validate an artificial neural network (ANN) model, and their biological associations were examined using gene set enrichment analysis (GSEA) and immune infiltration analysis. In GSE152805, key cell populations were identified and subsequently characterized by pseudotime, cell-cell communication, pathway activity, and metabolic analyses.
