Identification of RNA Transcript Makers Associated With Prognosis of Kidney Renal Clear Cell Carcinoma by a Competing Endogenous RNA Network Analysis,Frontiers in Genetics

当前位置： X-MOL 学术 › Front. Genet. › 论文详情

Our official English website, www.x-mol.net, welcomes your feedback! (Note: you will need to create a separate account there.)

Identification of RNA Transcript Makers Associated With Prognosis of Kidney Renal Clear Cell Carcinoma by a Competing Endogenous RNA Network Analysis
Frontiers in Genetics ( IF 2.8 ) Pub Date : 2020-09-04 , DOI: 10.3389/fgene.2020.540094
Qiwei Yang _{1,

2} , Weiwei Chu ₃ , Wei Yang ₂ , Yanqiong Cheng ₄ , Chuanmin Chu ₂ , Xiuwu Pan ₁ , Jianqing Ye ₂ , Jianwei Cao ₂ , Sishun Gan ₂ , Xingang Cui _{1,

2}

Affiliation

Objective

This study aims to identify several RNA transcripts associated with the prognosis of kidney renal clear cell carcinoma (KIRC).

Methods

The differentially expressed mRNAs, lncRNAs, and miRNAs (DEmRNAs, DElncRNAs, and DEmiRNAs) between KIRC cases and controls were screened based on an RNA-seq dataset from The Cancer Genome Atlas (TCGA) database. Subsequently, miRcode, miRDB, and TargetScan database were used to predict interactions between lncRNAs, miRNAs and target mRNAs. Then, a ceRNA network was built using miRNAs-mRNAs and lncRNAs-miRNAs pairs. Functional analysis of mRNAs in ceRNA was performed. Finally, the survival analysis of RNA transcripts in ceRNA network and correlation analysis for key RNA regulators were carried out.

Results

There were 1527 DElncRNAs, 54 DEmiRNAs, and 2321 DEmRNAs. A ceRNA network was constructed among 81 lncRNAs, 9 miRNAs, and 197 mRNAs. Functional analysis showed that numerous mRNAs were significantly associated with regulation of cellular glucuronidation. In addition, 35 lncRNAs, 84 mRNAs and two miRNAs were significantly corelated to the survival of patients with KIRC (P < 0.05). Among them, miRNA-21 and miRNA-155 were negatively related to three lncRNAs (LINC00472, SLC25A5.AS1, and TCL6). Seven mRNA targets of miRNA-21 (FASLG, FGF1, TGFBI, ALX1, SLC30A10, ADCY2, and ABAT) and 12 mRNAs targets of miRNA-155 (STXBP5L, SCG2, SPI1, C12orf40, TYRP1, CTHRC1, TDO2, PTPRQ, TRPM8, ERMP1, CD36, and ST9SIA4) also acted as prognostic biomarkers for KIRC patients.

Conclusion

We screened numerous novel prognosis-related RNA markers for KIRC patients by a ceRNA network analysis, providing deeper understandings of prognostic values of RNA transcripts for KIRC.

中文翻译：

通过竞争性内源性 RNA 网络分析鉴定与肾透明细胞癌预后相关的 RNA 转录物制造者

Objective

本研究旨在确定与肾透明细胞癌 (KIRC) 预后相关的几种 RNA 转录物。

Methods

根据癌症基因组图谱 (TCGA) 数据库中的 RNA-seq 数据集筛选 KIRC 病例和对照之间差异表达的 mRNA、lncRNA 和 miRNA（DEmRNA、DElncRNA 和 DEmiRNA）。随后，使用 miRcode、miRDB 和 TargetScan 数据库来预测 lncRNA、miRNA 和靶 mRNA 之间的相互作用。然后，使用 miRNAs-mRNAs 和 lncRNAs-miRNAs 对构建 ceRNA 网络。对ceRNA中的mRNA进行功能分析。最后，进行了 ceRNA 网络中 RNA 转录物的存活分析和关键 RNA 调节因子的相关性分析。

Results

共有 1527 个 DElncRNA、54 个 DEmiRNA 和 2321 个 DEmRNA。在 81 个 lncRNA、9 个 miRNA 和 197 个 mRNA 之间构建了一个 ceRNA 网络。功能分析表明，许多 mRNA 与细胞葡萄糖醛酸化的调节显着相关。此外，35 个 lncRNA、84 个 mRNA 和 2 个 miRNA 与 KIRC 患者的生存率显着相关。磷< 0.05)。其中，miRNA-21和miRNA-155与三个lncRNA（LINC00472、SLC25A5.AS1和TCL6）呈负相关。miRNA-21 的 7 个 mRNA 靶标（法斯尔格,FGF1,TGFBI,ALX1,SLC30A10,ADCY2，和一只蝙蝠) 和 miRNA-155 的 12 个 mRNA 靶标 (STXBP5L,SCG2,SPI1,C12orf40,TYRP1,CTHRC1,TDO2,PTPRQ,TRPM8,ERMP1,CD36，和ST9SIA4) 也可作为 KIRC 患者的预后生物标志物。