Detecting and quantifying circular RNAs in terabyte-scale RNA-seq datasets with CIRI3.

IF 41.7 1区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Nature biotechnology Pub Date : 2025-10-01 DOI:10.1038/s41587-025-02835-1

Xin Zheng,Jinyang Zhang,Lipu Song,Xiang Jennie Li,Fangqing Zhao,Yuan Gao

引用次数: 0

Abstract

To address recent challenges in circular RNA (circRNA) analysis, we present CIRI3, a tool for circRNA detection and quantification in terabyte-scale RNA-sequencing datasets. Using dynamic multithreaded task partitioning and a blocking search strategy for junction reads, CIRI3 is an order of magnitude faster than existing tools, while providing increased accuracy. We identified differentially spliced circRNAs across 2,535 cancer-related samples, and constructed a pretraining model and a biomarker network provided as the CIRIonco database.

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利用CIRI3在太字节规模的RNA-seq数据集中检测和定量环状rna。

为了解决环状RNA （circRNA）分析中的最新挑战，我们提出了CIRI3，一种用于在太字节规模的RNA测序数据集中检测和定量环状RNA的工具。CIRI3使用动态多线程任务分区和结点读取的阻塞搜索策略，比现有工具快了一个数量级，同时提供了更高的准确性。我们在2535个癌症相关样本中发现了不同剪接的环状rna，并构建了一个预训练模型和一个生物标志物网络，作为CIRIonco数据库。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Nature biotechnology 工程技术-生物工程与应用微生物

CiteScore

63.00

自引率

1.70%

发文量

382

审稿时长

3 months

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