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Methods Mol Biol ; 2832: 67-79, 2024.
Article in English | MEDLINE | ID: mdl-38869788

ABSTRACT

Alternative splicing (AS) is an important mechanism contributing to stress-induced regulation of gene expression and proteome diversity. Massive sequencing technologies allow the identification of transcripts generated via stress-responsive AS, potentially important for adaptation to stress conditions. Several bioinformatics tools have been developed to identify differentially expressed alternative splicing events/transcripts from RNA-sequencing results. This chapter describes a detailed protocol for differential alternative splicing analysis using the rMATS tool. In addition, we provide guidelines for validation of the detected splice variants by qRT-PCR based on the obtained output files.


Subject(s)
Alternative Splicing , Computational Biology , Stress, Physiological , Alternative Splicing/genetics , Stress, Physiological/genetics , Computational Biology/methods , Software , Humans , Sequence Analysis, RNA/methods , High-Throughput Nucleotide Sequencing/methods , Gene Expression Profiling/methods
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