AS responses to T3 analyzed by event type and biological enrichment.
a Chemical structure of “T3” and KH-CB19. b Inhibition spectrum of the compounds for CLK1, CLK2, CLK3, DYRK1A, and DYRK1B (1 mM of ATP was used for CLK1, CLK2, CLK3, DYRK1A, and DYRK1B kinase). c MISO AS event type ∆PSI distributions across CLK inhibitor concentration for the HCT116 unstranded RNA-Seq data set. Horizontal axis categories are concentrations of T3. SE, RI, A5SS, and A3SS event classes are as described in the main text; AFE: alternative first exon, ALE: alternative last exon, MXE: mutually exclusive exon. Event counts in parentheses. d VAST-tools AS event type ∆PSI distributions across CLK inhibitor concentration for the HCT116 unstranded RNA-Seq data set. Horizontal axis categories are concentrations of T3. VAST-tools event types are: S, C1, C2, C3: SE with increasing complexity, MIC: skipped microexons, IR-S: RI not overlapping another annotated event, IR-C: RI overlapping another annotated event, Alt3: alternative acceptor site, Alt5: alternative donor site. Event counts in parentheses. e BP enrichment map for differentially spliced genes in the HCT116 unstranded RNA-Seq data set. Each node represents a GO BP gene set. Node cores are colored red when that gene set is enriched among genes differentially spliced in the 0.05–0.5 µM samples, and the outer ring is colored red when that gene set is enriched in the 1.0–10.0 µM samples. Nodes present in both are solid colored. Edge thickness indicates the level of overlap between two gene sets, considering the set of differentially spliced genes in the 0.05–0.5 µM (green edges) or 1.0–10.0 µM (blue edges) samples. f Sashimi style plot62 of exon skipping events associated with the SRSF4 gene. RPKM values are displayed as 0–100 along the vertical axis and genome coordinates (bp) along the horizontal axis. Each strip represents increasing T3 concentration, value displayed on the right. The number of events represented by each splice event are inserted in the center of the curved lines. Right of the main plot, MISO PSI posterior distribution