方法用于预测 circRNA-miRNA-mRNA 调控网络：以 GreenCircRNA 和 PlantCircNet 数据库为例。

Methods for Predicting CircRNA-miRNA-mRNA Regulatory Networks: GreenCircRNA and PlantCircNet Databases as Study Cases.

机构信息

Laboratory of Genome and Plant Populations, Department of Biophysics, Universidade Federal do Rio Grande do Sul-UFRGS, Porto Alegre, RS, Brazil.

PPGBCM, Center of Biotechnology, Universidade Federal do Rio Grande do Sul-UFRGS, Porto Alegre, RS, Brazil.

出版信息

Methods Mol Biol. 2021;2362:181-193. doi: 10.1007/978-1-0716-1645-1_11.

DOI:10.1007/978-1-0716-1645-1_11

PMID:34195964

Abstract

Circular RNAs are molecules formed by 3'-5' ligation in a splicing reaction, the so-called backsplicing. Well described in other groups, especially in humans, circRNA studies that include prediction and validation in plants are recent. It has already been shown that circRNAs can interact with microRNAs, acting as sponges, and adding a new layer of complexity in regulating eukaryotic transcription. Here, we cover two up-to-date databases that allow the users to perform analyses of the circRNA-miRNA-mRNA interactions in plants. We choose two databases to demonstrate their functions and compare their approaches to obtain a more robust and reliable interaction network.

摘要

环状 RNA 是通过剪接反应中的 3'-5' 连接形成的分子，即所谓的反式剪接。环状 RNA 的研究在其他生物组中已经有了很好的描述，特别是在人类中，而包括在植物中进行预测和验证的环状 RNA 研究则是最近的事情。已经表明，环状 RNA 可以与 microRNA 相互作用，充当海绵，并在调节真核转录中增加了一个新的复杂性层次。在这里，我们介绍了两个最新的数据库，允许用户对植物中的环状 RNA-miRNA-mRNA 相互作用进行分析。我们选择了两个数据库来展示它们的功能，并比较它们的方法，以获得更稳健和可靠的相互作用网络。