AUTHOR=Shen Fei , Hu Chenyang , Huang Xin , He Hao , Yang Deng , Zhao Jirong , Yang Xiaozeng TITLE=Advances in alternative splicing identification: deep learning and pantranscriptome JOURNAL=Frontiers in Plant Science VOLUME=14 YEAR=2023 URL=https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2023.1232466 DOI=10.3389/fpls.2023.1232466 ISSN=1664-462X ABSTRACT=

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.