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Advances in alternative splicing identification: deep learning and pantranscriptome

文献类型： 外文期刊

作者： Shen, Fei 1 ; Hu, Chenyang 1 ; Huang, Xin 1 ; He, Hao 1 ; Yang, Deng 1 ; Zhao, Jirong 2 ; Yang, Xiaozeng 1 ;

作者机构： 1.Beijing Acad Agr & Forestry Sci, Inst Biotechnol, Beijing, Peoples R China

2.Yanan Univ, Coll Life Sci, Shanxi Key Lab Chinese Jujube, Yanan, Shanxi, Peoples R China

关键词： alternative splicing; RNA-seq; Iso-seq; detection algorithm; deep learning; pantranscriptome

期刊名称：FRONTIERS IN PLANT SCIENCE （ 影响因子：5.6； 五年影响因子：6.8 ）

ISSN： 1664-462X

年卷期： 2023 年 14 卷

页码：

收录情况： SCI

摘要： In plants, alternative splicing is a crucial mechanism for regulating gene expression at the post-transcriptional level, which leads to diverse proteins by generating multiple mature mRNA isoforms and diversify the gene regulation. Due to the complexity and variability of this process, accurate identification of splicing events is a vital step in studying alternative splicing. This article presents the application of alternative splicing algorithms with or without reference genomes in plants, as well as the integration of advanced deep learning techniques for improved detection accuracy. In addition, we also discuss alternative splicing studies in the pan-genomic background and the usefulness of integrated strategies for fully profiling alternative splicing.

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