Detection of LSVs in lowly expressed genes requires data with higher information content. AS events involving three or more junctions benefit most from more complex data sets. (A–D) Fraction (A,B) and absolute number (C,D) of regulated LSVs falling in bins with different TPM values for different read lengths (36–100 nt) (A,C) and read depths (1–30 M reads) (B,D), ranging from light pink for low to brown for high TPM values. The number of genes in each bin is indicated beside the legend. (E,F) Fraction of regulated AS event types: alternative 3′ splice site (A3SS, yellow), alternative 5′ splice site (A5SS, light green), alternative first exon (AFE, green), alternative last exon (ALE, sea green), cassette exon (CE, petrol), and intron retention (IR, blue) for different (E) read lengths (36–100 nt) and (F) read depths (1–30 M reads).
