使用批量和单细胞 RNA-Seq 数据鉴定和定量微外显子。

Identification and Quantification of Microexons Using Bulk and Single-Cell RNA-Seq Data.

机构信息

Wellcome Sanger Institute, Cambridge, UK.

Donnelly Centre for Cellular and Biomolecular Research and Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.

出版信息

Methods Mol Biol. 2022;2537:129-147. doi: 10.1007/978-1-0716-2521-7_8.

DOI:10.1007/978-1-0716-2521-7_8

PMID:35895262

Abstract

The analysis of RNA-seq has greatly improved the characterization and understanding of the transcriptome. In particular, RNA-seq experiments have extended catalogs of alternative splicing events. However, the analysis of RNAs-seq data for detection and quantification of microexons, extremely short exons of length up to 30 nt, require specialized computational workflows. Here, we describe MicroExonator, a reproducible computational workflow for microexon splicing analysis using bulk or single-cell RNA-seq data.

摘要

RNA-seq 的分析极大地提高了对转录组的描述和理解。特别是，RNA-seq 实验扩展了可变剪接事件的目录。然而，为了检测和定量长度达 30nt 的极短外显子，需要专门的计算工作流程来分析 RNA-seq 数据。在这里，我们描述了 MicroExonator，这是一种使用批量或单细胞 RNA-seq 数据进行微外显子剪接分析的可重复计算工作流程。