Identification of inflammation related key genes in three mouse lung diseases based on experimental studies and bioinformatics

WANG Hanqin; KANG Huimin; ZHOU Ke; LI Rou; CHEN Shi

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Journal of Hunan Normal University(Medical Science) ›› 2024, Vol. 21 ›› Issue (2) : 21-26.

Identification of inflammation related key genes in three mouse lung diseases based on experimental studies and bioinformatics

WANG Hanqin, KANG Huimin, ZHOU Ke, LI Rou, CHEN Shi

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Abstract

Objective RNA sequencing and bioinformatics methods were utilized to identify key genes associated with mouse silicosis, idiopathic pulmonary fibrosis (IPF), and chronic obstructive pulmonary disease (COPD). This research aims to establish a novel experimental foundation for diagnosing and treating chronic inflammatory lung diseases. Methods A mouse model of silicosis was established and validated, then RNA sequencing was conducted on the lung tissues of silicosis mice. Differentially expressed genes (DEGs) were identified using the limma package, volcano and heat maps were generated with the ggplot package. Common DEGs in silicosis, IPF, and COPD were identified using a Venn diagram. A protein-protein interaction (PPI) network was constructed using the STRING database to identify key genes among the DEGs. The expression of key genes in the lung tissues of silicosis mice was validated through qPCR assays, and the expression of key genes in IPF and COPD mice was validated using the GSE218997 and GSE76205 datasets. Results A mouse silicosis model was established and RNA sequencing of mouse lung tissue was performed, in conjunction with datasets from IPF and COPD mice, a total of 8 common DEGs were identified across the three diseases. The qPCR results revealed a significant increase in Cxcl10, MMP12, and Lcn2 in the lung tissue of silicosis mice, while no significant change was observed in Ctss levels. In the validation sets of IPF and COPD, Ctss, Cxcl10, MMP12, and Lcn2 all showed high expression. Conclusion Cxcl10, MMP12, and Lcn2 are potential inflammation related key genes for mouse silicosis, IPF, and COPD.

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silicosis / idiopathic pulmonary fibrosis / chronic obstructive pulmonary diseases / inflammation / key gene

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WANG Hanqin, KANG Huimin, ZHOU Ke, LI Rou, CHEN Shi. Identification of inflammation related key genes in three mouse lung diseases based on experimental studies and bioinformatics[J]. Journal of Hunan Normal University(Medical Science). 2024, 21(2): 21-26

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