Figure 3

Length and GC Bias in microarray and RNA-seq data. The smooth scatterplots compare the expression scores of a single sample measured by RNA-seq and microarray. In 3a we highlight additionally the short isoforms and find that RNA-seq tends to underestimate expression of short isoforms. In 3b we highlight isoforms with extreme GC content. The plot suggests that microarray and sequencing underestimate expression of low GC isoforms, while the high GC isoforms are overestimated by microarray and underestimated by RNA-seq.