rMATS analysis of alternative splicing events in a mouse model of environmental liver disease

rMATS (https://rnaseq-mats.sourceforge.io/) was used to identify differential alternative splicing events (ASEs) corresponding to all five major types of AS patterns, <em>i.e</em>., skipped exon (SE), mutually exclusive exons (MXE), alternative 3’ splice site (A3SS), alternative 5’ splice site (A5SS), and retained intron (RI), in the HFD-fed mouse livers exposed to Ar1260, PCB126, or Ar1260 + PCB126 co-exposure compared to vehicle control This dataset identifies differential ASEs corresponding to all five major types of AS patterns [<em>i.e.,</em> skipped exon (SE), mutually exclusive exons (MXE), alternative 3’ splice site (A3’SS), alternative 5’ splice site (A5’SS), and retained intron (RI)], between Ar1260, PCB126, and Ar1260 + PCB126-exposed samples and vehicle control. For each ASE, the estimation of the alternatively spliced region usage is defined as percent-spliced in (ψ or PSI). Each comparison was made to identify differential ASEs with an associated change in exon usage (∆ψ). Differential ASEs were detected with an FDR of &lt;0.05 and |∆ψ| of≥5%. The difference in the proportion of the two isoforms of the transcript was expressed as the change in mean percentage spliced-inform included (mean ∆ψ).