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Behroozi, Samira, Salimi, Mahdieh, Allahyari Fard, Najaf. (1404). Bioinformatics analysis identifies dysregulation of MiR-548F-3p and its hub gene in triple-negative breast cancer. , 28(4), 434-443. doi: 10.22038/ijbms.2025.79808.17287
Samira Behroozi; Mahdieh Salimi; Najaf Allahyari Fard. "Bioinformatics analysis identifies dysregulation of MiR-548F-3p and its hub gene in triple-negative breast cancer". , 28, 4, 1404, 434-443. doi: 10.22038/ijbms.2025.79808.17287
Behroozi, Samira, Salimi, Mahdieh, Allahyari Fard, Najaf. (1404). 'Bioinformatics analysis identifies dysregulation of MiR-548F-3p and its hub gene in triple-negative breast cancer', , 28(4), pp. 434-443. doi: 10.22038/ijbms.2025.79808.17287
Behroozi, Samira, Salimi, Mahdieh, Allahyari Fard, Najaf. Bioinformatics analysis identifies dysregulation of MiR-548F-3p and its hub gene in triple-negative breast cancer. , 1404; 28(4): 434-443. doi: 10.22038/ijbms.2025.79808.17287

Bioinformatics analysis identifies dysregulation of MiR-548F-3p and its hub gene in triple-negative breast cancer

Iranian Journal of Basic Medical Sciences
مقاله 4، دوره 28، شماره 4، تیر 2025، صفحه 434-443    اصل مقاله (584.18 K)
نوع مقاله: Original Article
شناسه دیجیتال (DOI): 10.22038/ijbms.2025.79808.17287
نویسندگان
Samira Behroozi1؛ Mahdieh Salimi* 1؛ Najaf Allahyari Fard2
1National Institute of Genetic Engineering and Biotechnology (NIGEB), Institute of Medical Biotechnology, Department of Medical Genetics, Tehran, Iran
2National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, Iran
چکیده
Objective(s): Triple-negative breast cancer (TNBC), which affects 15–20% of cases, lacks targeted therapies and poses challenges in treatment. MicroRNAs (miRNAs) are potential biomarkers and therapeutic targets in breast cancer. To unravel its unique regulatory role, this study focused on miRNA microarray analysis, particularly miR-548F-3p, in TNBC samples.
Materials and Methods: Using the GSE76275 dataset, gene expression profiles were analyzed using the Affymetrix Human Genome U133 Plus 2.0 Array. Differentially expressed genes (DEGs) were identified using robust preprocessing. Weighted gene co-expression network analysis (WGCNA) explored gene modules and identified hub genes co-expressed with miR-548F-3p. Functional enrichment and protein-protein interaction (PPI) network analyses were conducted. Survival analysis was used to assess the prognostic impact of the identified genes.
Results: The study found 224 up-regulated DEGs, with miR-548F-3p exhibiting significant down-regulation. MultimiR identified 400 genes that were targeted by miR-548F-3p. WGCNA revealed a blue co-expression module, with 356 genes targeted by miR-548F-3p. A Venn diagram identified common genes, including VANGL2, BRCC3, ANP32E, and ANLN. Functional enrichment highlighted crucial pathways in TNBC pathogenesis, including mitotic spindle organization, spindle assembly checkpoint signaling, cell cycle, and amino acid (serine) metabolism. PPI network analysis identified hub genes, including FOXM1, KIF23, and CDC20. VANGL2, BRCC3, ANP32E, and ANLN were significantly associated with patient outcomes in survival analysis.
Conclusion: This analysis highlighted TNBC’s molecular landscape, emphasizing miR-548F-3p’s regulatory role. The identified genes, VANGL2, BRCC3, ANP32E, and ANLN, offer insights into TNBC pathogenesis and potential therapeutic targets, laying the foundation for understanding their clinical implications in the intricate landscape of TNBC.
کلیدواژه‌ها
Computational biology؛ Gene expression profiling؛ MicroRNAs؛ Survival analysis؛ Triple negative breast - neoplasms
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