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13 April 2020 : Database Analysis  

Bioinformatics Analysis for Multiple Gene Expression Profiles in Sepsis

Jianhua Zhai1B, Anlong Qi1C, Yan Zhang1D, Lina Jiao1E, Yancun Liu1F, Songtao Shou1A*

DOI: 10.12659/MSM.920818

Med Sci Monit 2020; 26:e920818

Abstract

BACKGROUND: This work aimed to screen key biomarkers related to sepsis progression by bioinformatics analyses.

MATERIAL AND METHODS: The microarray datasets of blood and neutrophils from patients with sepsis or septic shock were downloaded from Gene Expression Omnibus database. Then, differentially expressed genes (DEGs) from 4 groups (sepsis versus normal blood samples; septic shock versus normal blood samples; sepsis neutrophils versus normal controls and septic shock neutrophils versus controls) were respectively identified followed by functional analyses. Subsequently, protein–protein network was constructed, and key functional sub-modules were extracted. Finally, receiver operating characteristic analysis was conducted to evaluate diagnostic values of key genes.

RESULTS: There were 2082 DEGs between blood samples of sepsis patients and controls, 2079 DEGs between blood samples of septic shock patients and healthy individuals, 6590 DEGs between neutrophils from sepsis and controls, and 1056 DEGs between neutrophils from septic shock patients and normal controls. Functional analysis showed that numerous DEGs were significantly enriched in ribosome-related pathway, cell cycle, and neutrophil activation involved in immune response. In addition, TRIM25 and MYC acted as hub genes in protein–protein interaction (PPI) analyses of DEGs from microarray datasets of blood samples. Moreover, MYC (AUC=0.912) and TRIM25 (AUC=0.843) had great diagnostic values for discriminating septic shock blood samples and normal controls. RNF4 was a hub gene from PPI analyses based on datasets from neutrophils and RNF4 (AUC=0.909) was capable of distinguishing neutrophil samples from septic shock samples and controls.

CONCLUSIONS: Our findings identified several key genes and pathways related to sepsis development.

Keywords: Genes, vif, Sepsis, Shock, Vestibular Function Tests, biomarkers, Case-Control Studies, Computational Biology, Gene Expression Profiling, Neutrophils, Nuclear Proteins, Protein Interaction Mapping, Proto-Oncogene Proteins c-myc, Shock, Septic, Transcription Factors, transcriptome, Tripartite Motif Proteins, Ubiquitin-Protein Ligases

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Science Editor, Medical Science Monitor, International Scientific Information, Inc., Melville, NY, USA

DOI: 10.12659/MSM.939088

Med Sci Monit 2022; 28:e939088

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Medical Science Monitor eISSN: 1643-3750
Medical Science Monitor eISSN: 1643-3750