Figure 3.

Differential isoform expression.A, workflow of differential isoform expression analysis. Genes were subselected based on expression, and differential expression was determined using a Chi-squared contingency table. B, genes are sorted by the maximum standard deviation of relative isoform usage among its isoforms. This maximum standard deviation is plotted (red if the gene has been identified as containing differentially expressed isoforms.) C, on the left, a Genome Browser view of the indicated genes is shown with GENCODE v34 annotation on top and identified isoforms below. On the right, the relative usage of each isoform in each replicate and condition is shown. Relative usage of the most variable isoform for each gene is highlighted in red.