Identification and validation of miR-583 and mir-877-5p as biomarkers in patients with breast cancer: an integrated experimental and bioinformatics research
Abstract Objectives Breast cancer (BC) is one of the most common cancers with a high mortality rate in women worldwide. The advantages of early cancer diagnosis are apparent, and it is a critical factor in increasing the patient’s life and survival. According to mounting evidence, microRNAs (miRNAs)...
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| Format: | Article |
| Language: | English |
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BMC
2023-05-01
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| Series: | BMC Research Notes |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s13104-023-06343-w |
| _version_ | 1797827692164284416 |
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| author | Zahra Foruzandeh Mohammad Reza Alivand Mehdi Ghiami-Rad Mohammad Zaefizadeh Saeid Ghorbian |
| author_facet | Zahra Foruzandeh Mohammad Reza Alivand Mehdi Ghiami-Rad Mohammad Zaefizadeh Saeid Ghorbian |
| author_sort | Zahra Foruzandeh |
| collection | DOAJ |
| description | Abstract Objectives Breast cancer (BC) is one of the most common cancers with a high mortality rate in women worldwide. The advantages of early cancer diagnosis are apparent, and it is a critical factor in increasing the patient’s life and survival. According to mounting evidence, microRNAs (miRNAs) may be crucial regulators of critical biological processes. miRNA dysregulation has been linked to the beginning and progression of various human malignancies, including BC, and can operate as tumor suppressors or oncomiRs. This study aimed to identify novel miRNA biomarkers in BC tissues and non-tumor adjacent tissues of patients with BC. Microarray datasets GSE15852 and GSE42568 for differentially expressed genes (DEGs) and GSE45666, GSE57897, and GSE40525 for differentially expressed miRNAs (DEMs) retrieved from the Gene Expression Omnibus (GEO) database were analyzed using “R” software. A protein-protein interaction (PPI) network was created to identify the hub genes. MirNet, miRTarBase, and MirPathDB databases were used to predict DEMs targeted genes. Functional enrichment analysis was used to demonstrate the topmost classifications of molecular pathways. The prognostic capability of selected DEMs was evaluated through a Kaplan-Meier plot. Moreover, the specificity and sensitivity of detected miRNAs to discriminate BC from adjacent controls were assessed by area under the curve (AUC) using the ROC curve analysis. In the last phase of this study, gene expression on 100 BC tissues and 100 healthy adjacent tissues were analyzed and calculated by using the Real-Time PCR method. Results This study declared that miR-583 and miR-877-5p were downregulated in tumor samples in comparison to adjacent non-tumor samples (|logFC|< 0 and P ≤ 0.05). Accordingly, ROC curve analysis demonstrated the biomarker potential of miR-877-5p (AUC = 0.63) and miR-583 (AUC = 0.69). Our results showed that has-miR-583 and has-miR-877-5p could be potential biomarkers in BC. |
| first_indexed | 2024-04-09T12:52:25Z |
| format | Article |
| id | doaj.art-2085cda2bef34293b8e32cde70ff7c14 |
| institution | Directory Open Access Journal |
| issn | 1756-0500 |
| language | English |
| last_indexed | 2024-04-09T12:52:25Z |
| publishDate | 2023-05-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Research Notes |
| spelling | doaj.art-2085cda2bef34293b8e32cde70ff7c142023-05-14T11:07:19ZengBMCBMC Research Notes1756-05002023-05-0116111210.1186/s13104-023-06343-wIdentification and validation of miR-583 and mir-877-5p as biomarkers in patients with breast cancer: an integrated experimental and bioinformatics researchZahra Foruzandeh0Mohammad Reza Alivand1Mehdi Ghiami-Rad2Mohammad Zaefizadeh3Saeid Ghorbian4Department of Molecular Genetics, Ahar Branch, Islamic Azad UniversityEye Research Center, The Five Senses Health Institute, Rassoul Akram Hospital, Iran University of Medical SciencesDepartment of Microbiology, Faculty of Basic Sciences, Ahar Branch, Islamic Azad UniversityArdabil Branch, Islamic Azad UniversityDepartment of Molecular Genetics, Ahar Branch, Islamic Azad UniversityAbstract Objectives Breast cancer (BC) is one of the most common cancers with a high mortality rate in women worldwide. The advantages of early cancer diagnosis are apparent, and it is a critical factor in increasing the patient’s life and survival. According to mounting evidence, microRNAs (miRNAs) may be crucial regulators of critical biological processes. miRNA dysregulation has been linked to the beginning and progression of various human malignancies, including BC, and can operate as tumor suppressors or oncomiRs. This study aimed to identify novel miRNA biomarkers in BC tissues and non-tumor adjacent tissues of patients with BC. Microarray datasets GSE15852 and GSE42568 for differentially expressed genes (DEGs) and GSE45666, GSE57897, and GSE40525 for differentially expressed miRNAs (DEMs) retrieved from the Gene Expression Omnibus (GEO) database were analyzed using “R” software. A protein-protein interaction (PPI) network was created to identify the hub genes. MirNet, miRTarBase, and MirPathDB databases were used to predict DEMs targeted genes. Functional enrichment analysis was used to demonstrate the topmost classifications of molecular pathways. The prognostic capability of selected DEMs was evaluated through a Kaplan-Meier plot. Moreover, the specificity and sensitivity of detected miRNAs to discriminate BC from adjacent controls were assessed by area under the curve (AUC) using the ROC curve analysis. In the last phase of this study, gene expression on 100 BC tissues and 100 healthy adjacent tissues were analyzed and calculated by using the Real-Time PCR method. Results This study declared that miR-583 and miR-877-5p were downregulated in tumor samples in comparison to adjacent non-tumor samples (|logFC|< 0 and P ≤ 0.05). Accordingly, ROC curve analysis demonstrated the biomarker potential of miR-877-5p (AUC = 0.63) and miR-583 (AUC = 0.69). Our results showed that has-miR-583 and has-miR-877-5p could be potential biomarkers in BC.https://doi.org/10.1186/s13104-023-06343-wMicroRNAmiR-583BiomarkerBreast cancermiR-877-5p |
| spellingShingle | Zahra Foruzandeh Mohammad Reza Alivand Mehdi Ghiami-Rad Mohammad Zaefizadeh Saeid Ghorbian Identification and validation of miR-583 and mir-877-5p as biomarkers in patients with breast cancer: an integrated experimental and bioinformatics research BMC Research Notes MicroRNA miR-583 Biomarker Breast cancer miR-877-5p |
| title | Identification and validation of miR-583 and mir-877-5p as biomarkers in patients with breast cancer: an integrated experimental and bioinformatics research |
| title_full | Identification and validation of miR-583 and mir-877-5p as biomarkers in patients with breast cancer: an integrated experimental and bioinformatics research |
| title_fullStr | Identification and validation of miR-583 and mir-877-5p as biomarkers in patients with breast cancer: an integrated experimental and bioinformatics research |
| title_full_unstemmed | Identification and validation of miR-583 and mir-877-5p as biomarkers in patients with breast cancer: an integrated experimental and bioinformatics research |
| title_short | Identification and validation of miR-583 and mir-877-5p as biomarkers in patients with breast cancer: an integrated experimental and bioinformatics research |
| title_sort | identification and validation of mir 583 and mir 877 5p as biomarkers in patients with breast cancer an integrated experimental and bioinformatics research |
| topic | MicroRNA miR-583 Biomarker Breast cancer miR-877-5p |
| url | https://doi.org/10.1186/s13104-023-06343-w |
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