Department of Molecular Medicine, University of Padova, Padova, Italy.
Department of Molecular Medicine, University of Padova, Padova, Italy; Department of Biology, University of Padova, Padova, Italy.
Brief Bioinform. 2022 Jan 17;23(1). doi: 10.1093/bib/bbab418.
Circular RNAs (circRNAs) are a large class of covalently closed RNA molecules originating by a process called back-splicing. CircRNAs are emerging as functional RNAs involved in the regulation of biological processes as well as in disease and cancer mechanisms. Current computational methods for circRNA identification from RNA-seq experiments are characterized by low discovery rates and performance dependent on the analysed data set. We developed CirComPara2 (https://github.com/egaffo/CirComPara2), a new automated computational pipeline for circRNA discovery and quantification, which consistently achieves high recall rates without losing precision by combining multiple circRNA detection methods. In our benchmark analysis, CirComPara2 outperformed state-of-the-art circRNA discovery tools and proved to be a reliable and robust method for comprehensive transcriptome characterization.
环状 RNA（circRNAs）是一类通过称为反向剪接的过程产生的共价闭合 RNA 分子。环状 RNA 作为参与生物过程调节以及疾病和癌症机制的功能 RNA 而出现。目前从 RNA-seq 实验中鉴定环状 RNA 的计算方法的特点是发现率低，性能取决于分析的数据集中。我们开发了 CirComPara2（https://github.com/egaffo/CirComPara2），这是一种新的自动化计算管道，用于环状 RNA 的发现和定量，通过结合多种环状 RNA 检测方法，在不损失精度的情况下，始终实现高召回率。在我们的基准分析中，CirComPara2 优于最先进的环状 RNA 发现工具，并被证明是一种可靠和强大的方法，用于全面的转录组特征描述。
