{"title":"Screening and Bioinformatics Analysis of MicroRNA Biomarkers in Triple-Negative Breast Cancer.","authors":"Jingjing Fan, Chao Dong, Binlin Ma","doi":"10.1615/CritRevEukaryotGeneExpr.2023046030","DOIUrl":null,"url":null,"abstract":"<p><strong>Objective: </strong>To identify and evaluate the bioinformatics of microRNA (miRNA) biomarkers in triple-negative breast cancer.</p><p><strong>Methods: </strong>The MDA-MB-231 cell line with stable and low expression of c-Myc was created, and the expression patterns of messenger RNA (mRNA) and miRNA were investigated by cluster analysis. The genes regulated by c-Myc were then screened by transcriptome sequencing and miRNA sequencing. The negative binomial distribution of the DESeq software package was used to test for and determine the differential expression of genes.</p><p><strong>Results: </strong>In the c-Myc deletion group, 276 differently expressed mRNAs were screened out by transcriptome sequencing, of which 152 mRNAs were considerably upregulated and 124 were significantly downregulated in comparison to the control group. One-hundred-seventeen (117) differentially expressed miRNAs were found using miRNA sequencing, of which 47 showed a substantial upregulation and 70 a significant downregulation. According to the Miranda algorithm, 1803 mRNAs could be targeted by 117 differently expressed miRNAs. Comparing the two sets of data, a total of 5 miRNAs were differentially expressed after targeted binding with 21 mRNAs, which were subjected to GO and KEGG enrichment analysis. The genes regulated by c-Myc were mainly enriched in signaling pathways such as extracellular matrix receptors and Hippo.</p><p><strong>Conclusion: </strong>Twenty-one target genes and five differential miRNAs in the mRNA-c-Myc-miRNA regulatory network are potential therapeutic targets for triple-negative breast cancer.</p>","PeriodicalId":56317,"journal":{"name":"Critical Reviews in Eukaryotic Gene Expression","volume":null,"pages":null},"PeriodicalIF":1.5000,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"1","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Critical Reviews in Eukaryotic Gene Expression","FirstCategoryId":"3","ListUrlMain":"https://doi.org/10.1615/CritRevEukaryotGeneExpr.2023046030","RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"BIOTECHNOLOGY & APPLIED MICROBIOLOGY","Score":null,"Total":0}
引用次数: 1
Abstract
Objective: To identify and evaluate the bioinformatics of microRNA (miRNA) biomarkers in triple-negative breast cancer.
Methods: The MDA-MB-231 cell line with stable and low expression of c-Myc was created, and the expression patterns of messenger RNA (mRNA) and miRNA were investigated by cluster analysis. The genes regulated by c-Myc were then screened by transcriptome sequencing and miRNA sequencing. The negative binomial distribution of the DESeq software package was used to test for and determine the differential expression of genes.
Results: In the c-Myc deletion group, 276 differently expressed mRNAs were screened out by transcriptome sequencing, of which 152 mRNAs were considerably upregulated and 124 were significantly downregulated in comparison to the control group. One-hundred-seventeen (117) differentially expressed miRNAs were found using miRNA sequencing, of which 47 showed a substantial upregulation and 70 a significant downregulation. According to the Miranda algorithm, 1803 mRNAs could be targeted by 117 differently expressed miRNAs. Comparing the two sets of data, a total of 5 miRNAs were differentially expressed after targeted binding with 21 mRNAs, which were subjected to GO and KEGG enrichment analysis. The genes regulated by c-Myc were mainly enriched in signaling pathways such as extracellular matrix receptors and Hippo.
Conclusion: Twenty-one target genes and five differential miRNAs in the mRNA-c-Myc-miRNA regulatory network are potential therapeutic targets for triple-negative breast cancer.
期刊介绍:
Critical ReviewsTM in Eukaryotic Gene Expression presents timely concepts and experimental approaches that are contributing to rapid advances in our mechanistic understanding of gene regulation, organization, and structure within the contexts of biological control and the diagnosis/treatment of disease. The journal provides in-depth critical reviews, on well-defined topics of immediate interest, written by recognized specialists in the field. Extensive literature citations provide a comprehensive information resource.
Reviews are developed from an historical perspective and suggest directions that can be anticipated. Strengths as well as limitations of methodologies and experimental strategies are considered.