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鉴定和验证与肺腺癌预后相关的新型 miRNA-mRNA 调控网络。

Identifying and Validating a Novel miRNA-mRNA Regulatory Network Associated with Prognosis in Lung Adenocarcinoma.

机构信息

Central Laboratory, Yijishan Hospital of Wannan Medical College, Wuhu, Anhui 241002, China.

Key Laboratory of Non-coding RNA Transformation Research of Anhui Higher Education Institution, Wannan Medical College, Wuhu, Anhui 241002, China.

出版信息

Chin Med Sci J. 2022 Mar 31;37(1):31-43. doi: 10.24920/003966.

Abstract

Objective Many studies have revealed the crucial roles of miRNA in multiple human cancers, including lung adenocarcinoma (LUAD). In this study, we sought to explore new miRNA-mRNA pairs that are associated with LUAD prognosis. Methods A novel miRNA-mRNA regulatory network associated with prognosis in LUAD was identified and validated using the bioinformatic tools including OncomiR database, StarBase, miRnet, GEPIA2, UALCAN. Results Twenty key miRNAs were compiled after the analysis of the expression and prognostic value in OncomiR and StarBase. Targeted mRNAs of these key miRNAs were predicted in miRnet, and the resulting mRNAs were also analyzed for their prognostic values and expression patterns in GEPIA2 and UALCAN, respectively. Further expression correlation analysis was performed in StarBase. Subsequently, a new miRNA-mRNA network was built, of which each RNA pair showed negative expression correlation, opposite expression pattern, and prognostic value. Protein-protein interaction network was under construction for the mRNAs, and 19 hub genes were determined. Enrichment analysis showed that "Cell Cycle, Mitotic" was the most significantly enriched term. Then, a miRNA-hub gene sub-network was built. We selected and validated the regulatory relationship of some miRNA-hub pairs, including hsa-miR-1976/RFC2, hsa-let-7c-5p/RFC2, hsa-let-7c-5p/ESPL1, hsa-let-7c-5p/CDC25A, and hsa-miR-101-3p/KIF2C. Moreover, over-expression of hsa-miR-1976 and hsa-let-7c-5p resulted in significant cell cycle arrest. Conclusions Our results determined new prognosis-associated miRNA-mRNA pairs and might shed further light on the mechanism via which miRNA-mRNA network influences prognosis in LUAD.

摘要

目的 许多研究揭示了 miRNA 在包括肺腺癌(LUAD)在内的多种人类癌症中的关键作用。在本研究中,我们试图探索与 LUAD 预后相关的新 miRNA-mRNA 对。

方法 使用 OncomiR 数据库、StarBase、miRnet、GEPIA2、UALCAN 等生物信息学工具,识别和验证与 LUAD 预后相关的新型 miRNA-mRNA 调控网络。

结果 在 OncomiR 和 StarBase 中分析表达和预后价值后,共筛选出 20 个关键 miRNA。在 miRnet 中预测这些关键 miRNA 的靶向 mRNAs,分别在 GEPIA2 和 UALCAN 中分析这些 mRNAs的预后价值和表达模式,进一步在 StarBase 中进行表达相关性分析。随后构建了一个新的 miRNA-mRNA 网络,其中每个 RNA 对均显示出负表达相关性、相反的表达模式和预后价值。正在构建 mRNAs 的蛋白质-蛋白质相互作用网络,并确定了 19 个枢纽基因。富集分析表明,“细胞周期、有丝分裂”是最显著富集的术语。然后构建了一个 miRNA-枢纽基因子网络。我们选择并验证了一些 miRNA-枢纽基因对的调控关系,包括 hsa-miR-1976/RFC2、hsa-let-7c-5p/RFC2、hsa-let-7c-5p/ESPL1、hsa-let-7c-5p/CDC25A 和 hsa-miR-101-3p/KIF2C。此外,hsa-miR-1976 和 hsa-let-7c-5p 的过表达导致细胞周期明显停滞。

结论 本研究确定了新的与预后相关的 miRNA-mRNA 对,可能进一步阐明 miRNA-mRNA 网络影响 LUAD 预后的机制。

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