Critical Biological Functions and Clinical Implications of Epigenetic-Related Candidate Biomarkers in Chronic...

Chronic obstructive pulmonary disease (COPD) is the primary cause of deaths related to respiratory diseases. Epigenetic modifications are crucial in the development of mammals, and any disruption to epigenetic regulation may result in disease.

We performed differential expression analysis on the GSE19407, GSE11784 and GSE20257 datasets from the Gene Expression Omnibus (GEO) dataset and obtained differentially expressed epigenetic-related genes (DE-ERGs) in COPD. Three machine learning techniques were used to screen the candidate epigenetic-related biomarkers in DE-ERGs, thereby further enhancing the robustness of the analysis framework. Immune infiltration analysis was performed on biomarkers.

A total of 5 biomarkers (HMGN4, CIT, TLE1, TFPT, and UBE2T) were screened utilizing three machine learning algorithms. Immune infiltration analysis showed that the HMGN4 was positively correlated with activated CD4⁺ T cells and memory B cells and negatively correlated with CD56dim. In quantitative reverse transcription polymerase chain reaction (qRT-PCR) validation, the expression levels of 5 biomarkers were notably higher in COPD than in normal samples.

In summary, we identified 5 epigenetic-related candidate biomarkers that might be involved in COPD progression by bioinformatics techniques, which still require further experimental validation.