基于单样本基因集富集分析（ssGSEA）算法和竞争性内源RNA（ceRNA）调控网络评估的早期脓毒症阶段重要因素筛查

Screening of Important Factors in the Early Sepsis Stage Based on the Evaluation of ssGSEA Algorithm and ceRNA Regulatory Network.

作者信息

Huang Liou, Wu Chunrong, Xu Dan, Cui Yuhui, Tang Jianguo

机构信息

Department of Trauma-Emergency and Critical Care Medicine, Shanghai Fifth People's Hospital, Fudan University, Shanghai, China.

出版信息

Evol Bioinform Online. 2021 Nov 26;17:11769343211058463. doi: 10.1177/11769343211058463. eCollection 2021.

BACKGROUND

Sepsis is a dysregulated host response to pathogens. Delay in sepsis diagnosis has become a primary cause of patient death. This study determines some factors to prevent septic shock in its early stage, contributing to the early treatment of sepsis.

METHODS

The sequencing data (RNA- and miRNA-sequencing) of patients with septic shock were obtained from the NCBI GEO database. After re-annotation, we obtained lncRNAs, miRNA, and mRNA information. Then, we evaluated the immune characteristics of the sample based on the ssGSEA algorithm. We used the WGCNA algorithm to obtain genes significantly related to immunity and screen for important related factors by constructing a ceRNA regulatory network.

RESULT

After re-annotation, we obtained 1708 lncRNAs, 129 miRNAs, and 17 326 mRNAs. Also, through the ssGSEA algorithm, we obtained 5 important immune cells. Finally, we constructed a ceRNA regulation network associated with SS pathways.

CONCLUSION

We identified 5 immune cells with significant changes in the early stage of septic shock. We also constructed a ceRNA network, which will help us explore the pathogenesis of septic shock.

背景

脓毒症是宿主对病原体的失调反应。脓毒症诊断延迟已成为患者死亡的主要原因。本研究确定了一些在脓毒症早期预防感染性休克的因素，有助于脓毒症的早期治疗。

方法

从NCBI基因表达综合数据库（NCBI GEO数据库）获取感染性休克患者的测序数据（RNA测序和miRNA测序）。重新注释后，我们获得了长链非编码RNA（lncRNAs）、微小RNA（miRNA）和信使核糖核酸（mRNAs）信息。然后，我们基于单样本基因集富集分析（ssGSEA）算法评估样本的免疫特征。我们使用加权基因共表达网络分析（WGCNA）算法获得与免疫显著相关的基因，并通过构建竞争性内源性RNA（ceRNA）调控网络筛选重要相关因素。