ArticleIranian journal of medical sciences2025
Integrated Expression Analysis May Support Serine/Threonine Kinases as Common Hub Genes in Breast Cancer.
Article in Iranian journal of medical sciences, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Background: Breast cancer (BC) is the most common cancer affecting women worldwide. There is a strong need to identify molecular pathways that might represent effective therapeutic targets. Methods: We conducted a large-scale transcriptomic analysis using publicly available datasets from the NCBI GEO and TCGA databases. Microarray datasets (GSE161533, GSE162228, GSE70947, and GSE139038) and RNA-Seq data were analyzed to identify differentially expressed genes (DEGs) using cut-off criteria of adjusted P<0.05 and |log2FC|>1. Gene co-expression networks were constructed using Weighted Gene co-expression Network Analysis (WGCNA) in R (version 1.68), followed by hub gene identification with STRING and MCODE tools. Functional enrichment was further explored through Gene Ontology analysis. Results: Two regulatory modules enriched in cancer datasets were identified from both microarray and RNA-Seq analyses, corresponding to a network of 85 genes, compared to a distinct network of 474 genes enriched in control tissue samples. Further analyses to identify densely connected gene clusters within these networks revealed a cluster ``containing 29 cancer-related genes that included five hub gene candidates encoding serine/threonine kinase family proteins NimA-Related Protein: Kinase 2 ( Conclusion: Survival analysis showed that tumors with higher expression levels of hub genes were associated with significantly shorter overall survival times among breast cancer patients. This finding suggests that these hub genes are highly relevant to BC pathophysiology and could be considered targets for monitoring.
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