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Updated: May 10, 2026
A Fast and Reliable Pipeline for Bacterial Transcriptome Analysis Case study: Serine-dependent Gene Regulation in Streptococcus pneumoniae
Published on: April 25, 2015
Transcriptome Combined with Mendelian Randomization to Identify and Validate Biomarkers Associated with Parthanatos
Haihong Zhao1,2, Bo Li3, Xia Jing1,2
1Department of Geriatric Medicine, Shanxi Bethune Hospital, Shanxi Academy of Medical Sciences, Third Hospital of Shanxi Medical University, Tongji Shanxi Hospital, Taiyuan, People's Republic of China.
Purpose:
Sepsis, which is triggered by infection and characterized by a systemic inflammatory response, has been associated with the diagnosis of sepsis, although the detailed molecular basis remains unclear. This study explores parthanatos-related genes (PRGs) as potential biomarkers for sepsis diagnosis and treatment.
Patients And Methods:
Data from GSE65682, GSE167363, and GSE95233 were analyzed. PRGs were identified, and candidate genes were selected by intersecting differentially expressed genes (DEGs) with key PRG-associated module genes. Biomarkers were determined through Mendelian randomization (MR), machine learning, Receiver Operating Characteristic (ROC) analysis, and validation. A nomogram was constructed. Additional analyses included immune cell infiltration, Gene Set Enrichment Analysis (GSEA), molecular networks, and drug predictions. Single-cell analysis of biomarkers was performed in GSE167363. Biomarker expression was validated using Real-Time Quantitative Polymerase Chain Reaction (RT-qPCR).
Results:
BRD1 and FOXJ3 were identified as biomarkers for sepsis. The nomogram based on these biomarkers showed strong predictive power. Immune infiltration analysis revealed that Macrophages M0 negatively correlated with both BRD1 and FOXJ3. A lncRNA-miRNA-mRNA network involving 26 miRNAs and 299 lncRNAs was predicted. GSEA showed associations with extracellular matrix organization, keratinization, and mRNA splicing. Drug prediction indicated digoxin, doxorubicin, and daunorubicin could target BRD1 and FOXJ3. The single-cell analysis results showed a significant differential expression of the FOXJ3 gene between spermatogenic cells. RT-qPCR confirmed that BRD1 was significantly decreased in sepsis, while FOXJ3 showed no significant difference.
Conclusion:
BRD1 and FOXJ3 were identified as sepsis biomarkers, offering new insights into sepsis pathogenesis and potential clinical applications for diagnosis and treatment.
