The biological functions of target genes in pan-cancers and cell lines were predicted by miR-375 microarray data from GEO database and bioinformatics

Zeng, Jiang‐Hui; Liang, Xuzhi; Lan, Huihua; Zhu, Xu; Liang, Xiu-Yun

doi:10.1371/journal.pone.0206689

Cited by 4 publications

(2 citation statements)

References 67 publications

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“…The next biomarker is cg05713971 near an effective gene called HERPUD1 Antineoplastic activity has been shown to be associated with gene HERPUD1 and further related to human cervical carcinoma according to a recent in vitro experiment ( 52 ). Such gene has also been detected to be regulated by functional microRNA miR-375 and further contributes to HPV-positive cervical cancer, validating our prediction ( 53 ).…”

Section: Discussionsupporting

confidence: 82%

Identifying anal and cervical tumorigenesis-associated methylation signaling with machine learning methods

et al. 2022

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Cervical and anal carcinoma are neoplastic diseases with various intraepithelial neoplasia stages. The underlying mechanisms for cancer initiation and progression have not been fully revealed. DNA methylation has been shown to be aberrantly regulated during tumorigenesis in anal and cervical carcinoma, revealing the important roles of DNA methylation signaling as a biomarker to distinguish cancer stages in clinics. In this research, several machine learning methods were used to analyze the methylation profiles on anal and cervical carcinoma samples, which were divided into three classes representing various stages of tumor progression. Advanced feature selection methods, including Boruta, LASSO, LightGBM, and MCFS, were used to select methylation features that are highly correlated with cancer progression. Some methylation probes including cg01550828 and its corresponding gene RNF168 have been reported to be associated with human papilloma virus-related anal cancer. As for biomarkers for cervical carcinoma, cg27012396 and its functional gene HDAC4 were confirmed to regulate the glycolysis and survival of hypoxic tumor cells in cervical carcinoma. Furthermore, we developed effective classifiers for identifying various tumor stages and derived classification rules that reflect the quantitative impact of methylation on tumorigenesis. The current study identified methylation signals associated with the development of cervical and anal carcinoma at qualitative and quantitative levels using advanced machine learning methods.

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Section: Discussionsupporting

confidence: 82%

Identifying anal and cervical tumorigenesis-associated methylation signaling with machine learning methods

et al. 2022

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“…Functional enrichment analysis of target genes in pan-cancer (including MTC) showed specific biological function of miR-375: amino acid biosynthetic, metabolic process and Cysteine and methionine metabolism. In particular, VASN, MAT2B, HERPUD1, TPAPPC6B and TAT were listed as probable gene targets of miR-375 (Zeng, Liang, Lan, Zhu, & Liang, 2018). Other studies identified different subsets of deregulated miRNAs.…”

Section: Bioinformatics Studies Identifying Mirnas In Mtcmentioning

confidence: 99%

Role of tissue and circulating microRNAs and DNA as biomarkers in medullary thyroid cancer

Chiacchiarini

Trocchianesi

Besharat

et al. 2021

Pharmacology & Therapeutics

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This is a PDF file of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability, but it is not yet the definitive version of record. This version will undergo additional copyediting, typesetting and review before it is published in its final form, but we are providing this version to give early visibility of the article. Please note that, during the production process, errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.

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Bone marrow mesenchymal stem cell-derived exosomes loaded with miR-26a through the novel immunomodulatory peptide DP7-C can promote osteogenesis

Lai,

Deng,

Liu

et al. 2023

Biotechnol Lett

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Purpose: As small bioactive molecules, exosomes can deliver osteogenesis-related miRNAs to target cells and promote osteogenesis. This study aimed to investigate miR-26a as a therapeutic cargo to be loaded into exosomes through a novel immunomodulatory peptide (DP7-C). In addition, the exosomes secreted from BMSCs were obtained to evaluate their osteogenic capacity.Methods: After transfecting BMSCs with DP7-C as a transfection agent, exosomes were extracted by ultracentrifugation from the culture supernatant of miR-26a-modi ed BMSCs. Then, we characterized and identi ed the engineered exosomes. Next, the effect of the engineered exosomes on osteogenesis was evaluated in vitro and in vivo, including in Transwell, wound healing, modi ed Alizarin red staining, western blot, real-time quantitative PCR, and experimental periodontitis assays. Finally, bioinformatics and data analysis were used to investigate the role of miR-26a in bone regeneration.Results: The DP7-C/miR-26a complex successfully transfected miR-26a into BMSCs and stimulated them to release a high dosage of exosomes overexpressing miR-26a. Furthermore, exosomes loaded with miR-26a could promote the proliferation, migration, and osteogenic differentiation of BMSCs in vitro and inhibit the destruction of periodontitis in vivo, maintaining the integrity of supporting periodontal tissue. Target gene analysis indicated that the osteogenic effect of miR-26a is related to the mTOR pathway.Conclusion: MiR-26a can be encapsulated into exosomes through DP7-C. Exosomes loaded with miR-26a can promote osteogenesis and inhibit bone loss in experimental periodontitis and serve as the foundation for a novel treatment strategy.

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The biological functions of target genes in pan-cancers and cell lines were predicted by miR-375 microarray data from GEO database and bioinformatics

Cited by 4 publications

References 67 publications

Identifying anal and cervical tumorigenesis-associated methylation signaling with machine learning methods

Identifying anal and cervical tumorigenesis-associated methylation signaling with machine learning methods

Role of tissue and circulating microRNAs and DNA as biomarkers in medullary thyroid cancer

Bone marrow mesenchymal stem cell-derived exosomes loaded with miR-26a through the novel immunomodulatory peptide DP7-C can promote osteogenesis

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