Bioinformatics analysis of the potentially functional circRNA-miRNA-mRNA network in breast cancer

• DOI: 10.1371/journal.pone.0301995
• Publication Date: 2024-04-18T17:29:14Z
• Authors: Cihat Erdogan; Ilknur Suer; Murat Kaya; Sukru Ozturk; Nizamettin Aydin; Zeyneb Kurt
• Keywords: KEGG

Breast cancer (BC) is the most common among women with high morbidity and mortality. Therefore, new research still needed for biomarker detection. GSE101124 GSE182471 datasets were obtained from Gene Expression Omnibus (GEO) database to evaluate differentially expressed circular RNAs (circRNAs). The Cancer Genome Atlas (TCGA) Molecular Taxonomy of International Consortium (METABRIC) databases used identify significantly dysregulated microRNAs (miRNAs) genes considering Prediction Analysis Microarray classification (PAM50). circRNA-miRNA-mRNA relationship was investigated using Cancer-Specific CircRNA, miRDB, miRTarBase, miRWalk databases. circRNA–miRNA–mRNA regulatory network annotated Ontology (GO) analysis Kyoto Encyclopedia Genes Genomes (KEGG) pathway database. protein-protein interaction constructed by STRING visualized Cytoscape tool. Then, raw miRNA data filtered some selection criteria according a specific expression level in PAM50 subgroups. A bottleneck method utilized obtain highly interacted hub cytoHubba plugin. Disease-Free Survival Overall performed these genes, which are detected within circRNA axis our study. We identified three circRNAs, miRNAs, eighteen candidate target that may play an important role BC. In addition, it has been determined molecules can be useful BC, especially determining basal-like breast (BLBC) subtype. conclude hsa_circ_0000515/miR-486-5p/SDC1 distinguishing patients BLBC subgroup