Fig. 4: Applying InPACT to identify dynamic IPA events in monocyte activation.

a The heatmap shows 204 significantly differential IPA events between untreated and LPS (lipopolysaccharides)-activated human monocytes (n = 3 replicates per condition). b The bubble plot depicts GO enrichments (biological process) for genes harboring differential IPA events. The Benjamini-Hochberg adjusted P-value estimated by hypergeometric test (two-sided) is shown by blue gradient. c The distribution of retained coding region fraction relative to the annotated longest CDR for differential IPA events. The CDR represents coding region. The composite and skipped IPA events are indicated in different colors. d The scatter plot depicts the relationship between changes in IPA usage (x-axis) and changes in gene expression (y-axis). Statistically significant differential up-regulated and down-regulated genes are represented by red and blue dots, respectively ( | log2FC | > 2, FDR < 0.05, two-sided). The FC represents fold change. Dashed horizontal lines indicate thresholds of gene expression, while dashed vertical lines indicate thresholds of IPA usage. e, f The comparison of the relative IPA usage of ARHGAP24 between untreated and LPS-activated human monocytes (n = 3 biologically independent samples). The center lines denote the median values with the boxes are bounded by the 25th and 75th percentiles. The whiskers extend to the maximum and minimum values within 1.5 times the interquartile range (IQR) from each end of the box. g Schematic representation of full-length and IPA truncated proteins of ARHGAP24. Known protein domains are shown as boxes with different colors as indicated. h The gel of 3’-Rapid Amplification of cDNA Ends (3’-RACE) experiment for gene ARHGAP24, and Sanger sequencing results of the amplified transcripts were depicted. The experiment was repeated n = 3 times.