Dataset Information

Screening and validation of differentially expressed genes in polymyositis.

ABSTRACT:

Background

Polymyositis (PM), a prevalent inflammatory myopathy, currently lacks defined pathogenic mechanism. To illuminate its pathogenesis, we integrated bioinformatics and clinical specimens to examine potential aberrant gene expression patterns and their localization.

Methods

We obtained GSE128470 and GSE3112 dataset from the Gene Expression Omnibus, performed Gene Set Enrichment Analysis (GSEA) and immune infiltration analysis using CiberSort, identified differentially expressed genes with Limma, conducted functional annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis, constructed a Protein-Protein Interaction network, and identified hub genes using Cytoscape. ROC analysis evaluated hub gene diagnostic accuracy for PM, validated their expression levels with clinical specimens.

Results

DEG analysis revealed 51 upregulated and 779 downregulated genes. Gene Ontology (GO) analysis implicated Type I interferon (IFN-Ⅰ) signaling, while KEGG pointed to cell adhesion molecule activation and oxidative phosphorylation inhibition. Protein-Protein Interaction (PPI) analysis identified 8 diagnosffftic hub genes. Clinical samples confirmed their upregulation in PM, especially IRF1 and IRF9 between muscle fibers. Different immune cell infiltrations were observed in PM patients versus controls.

Conclusions

Our study explores potential pathogenic factors, diagnostic markers, and immune cells in PM, with a focus on verifying IRF1 and IRF9 upregulation in the IFN-I signaling pathway. These findings bear significance for PM diagnosis and treatment.

SUBMITTER: Qin L

PROVIDER: S-EPMC10839795 | biostudies-literature | 2024 Feb

REPOSITORIES: biostudies-literature

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Publications

Screening and validation of differentially expressed genes in polymyositis.

Qin Linmang L Lin Haobo H Zhang Guangfeng G Wang Jieying J Feng Tianxiao T Lei Yunxia Y Xie Yuesheng Y Xu Ting T Zhang Xiao X

Heliyon 20240121 3

<h4>Background</h4>Polymyositis (PM), a prevalent inflammatory myopathy, currently lacks defined pathogenic mechanism. To illuminate its pathogenesis, we integrated bioinformatics and clinical specimens to examine potential aberrant gene expression patterns and their localization.<h4>Methods</h4>We obtained GSE128470 and GSE3112 dataset from the Gene Expression Omnibus, performed Gene Set Enrichment Analysis (GSEA) and immune infiltration analysis using CiberSort, identified differentially expre ...[more]

PMID: 38317877

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Dataset Information

Screening and validation of differentially expressed genes in polymyositis.

Background

Methods

Results

Conclusions

Publications

Screening and validation of differentially expressed genes in polymyositis.

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