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Volume 13
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10.3390/genes13111931
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Article

Integrated Tissue and Blood miRNA Expression Profiles Identify Novel Biomarkers for Accurate Non-Invasive Diagnosis of Breast Cancer: Preliminary Results and Future Clinical Implications

by
Fei Su
1,†,
Ziyu Gao
1,2,†,
Yueyang Liu
1,
Guiqin Zhou
3,
Ying Cui
1,
Chao Deng
1,2,
Yuyu Liu
1,2,
Yihao Zhang
2,
Xiaoyan Ma
2,
Yongxia Wang
2,
Lili Guan
4,
Yafang Zhang
2,* and
Baoquan Liu
2,5,*
1
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China
2
Department of Anatomy, Harbin Medical University, Harbin 150081, China
3
Department of Immunology, Harbin Medical University, Harbin 150081, China
4
Department of Information Management, Shanghai Lixin University of Accounting and Finance, Shanghai 200000, China
5
Department of Modern Medicine and Pharmacy, University of Tibetan Medicine, Lhasa 850000, China
*
Authors to whom correspondence should be addressed.
†
These authors contributed equally to this work.
Genes 2022, 13(11), 1931; https://doi.org/10.3390/genes13111931
Submission received: 29 August 2022 / Revised: 10 October 2022 / Accepted: 18 October 2022 / Published: 24 October 2022
(This article belongs to the Special Issue Machine Learning Supervised Algorithms in Bioinformatics)
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Abstract

We aimed to identify miRNAs that were closely related to breast cancer (BRCA). By integrating several methods including significance analysis of microarrays, fold change, Pearson’s correlation analysis, t test, and receiver operating characteristic analysis, we developed a decision-tree-based scoring algorithm, called Optimized Scoring Mechanism for Primary Synergy MicroRNAs (O-PSM). Five synergy miRNAs (hsa-miR-139-5p, hsa-miR-331-3p, hsa-miR-342-5p, hsa-miR-486-5p, and hsa-miR-654-3p) were identified using O-PSM, which were used to distinguish normal samples from pathological ones, and showed good results in blood data and in multiple sets of tissue data. These five miRNAs showed accurate categorization efficiency in BRCA typing and staging and had better categorization efficiency than experimentally verified miRNAs. In the Protein-Protein Interaction (PPI) network, the target genes of hsa-miR-342-5p have the most regulatory relationships, which regulate carcinogenesis proliferation and metastasis by regulating Glycosaminoglycan biosynthesis and the Rap1 signaling pathway. Moreover, hsa-miR-342-5p showed potential clinical application in survival analysis. We also used O-PSM to generate an R package uploaded on github (SuFei-lab/OPSM accessed on 22 October 2021). We believe that miRNAs included in O-PSM could have clinical implications for diagnosis, prognostic stratification and treatment of BRCA, proposing potential significant biomarkers that could be utilized to design personalized treatment plans in BRCA patients in the future.
Keywords: tissue; blood; breast cancer; primary synergy miRNA; diagnostic marker tissue; blood; breast cancer; primary synergy miRNA; diagnostic marker

Share and Cite

MDPI and ACS Style

Su, F.; Gao, Z.; Liu, Y.; Zhou, G.; Cui, Y.; Deng, C.; Liu, Y.; Zhang, Y.; Ma, X.; Wang, Y.; et al. Integrated Tissue and Blood miRNA Expression Profiles Identify Novel Biomarkers for Accurate Non-Invasive Diagnosis of Breast Cancer: Preliminary Results and Future Clinical Implications. Genes 2022, 13, 1931. https://doi.org/10.3390/genes13111931

AMA Style

Su F, Gao Z, Liu Y, Zhou G, Cui Y, Deng C, Liu Y, Zhang Y, Ma X, Wang Y, et al. Integrated Tissue and Blood miRNA Expression Profiles Identify Novel Biomarkers for Accurate Non-Invasive Diagnosis of Breast Cancer: Preliminary Results and Future Clinical Implications. Genes. 2022; 13(11):1931. https://doi.org/10.3390/genes13111931

Chicago/Turabian Style

Su, Fei, Ziyu Gao, Yueyang Liu, Guiqin Zhou, Ying Cui, Chao Deng, Yuyu Liu, Yihao Zhang, Xiaoyan Ma, Yongxia Wang, and et al. 2022. "Integrated Tissue and Blood miRNA Expression Profiles Identify Novel Biomarkers for Accurate Non-Invasive Diagnosis of Breast Cancer: Preliminary Results and Future Clinical Implications" Genes 13, no. 11: 1931. https://doi.org/10.3390/genes13111931

APA Style

Su, F., Gao, Z., Liu, Y., Zhou, G., Cui, Y., Deng, C., Liu, Y., Zhang, Y., Ma, X., Wang, Y., Guan, L., Zhang, Y., & Liu, B. (2022). Integrated Tissue and Blood miRNA Expression Profiles Identify Novel Biomarkers for Accurate Non-Invasive Diagnosis of Breast Cancer: Preliminary Results and Future Clinical Implications. Genes, 13(11), 1931. https://doi.org/10.3390/genes13111931

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