Fig. 7.

Isoform abundance estimation by IDP-identified hESC transcriptome and RefSeq annotation. The gene abundances of “common isoforms” (main text) are rescaled by a square-root transformation. The genes without novel isoforms (group 2) have stable abundance estimation and have high R² of 0.9985 in linear regression (blue dots). In contrast, novel isoforms found in existing genes lead to a large range of abundance corrections. The residuals of linear regression show different distributions between the two groups. Group 1 (genes with novel isoforms) is highlighted in orange and group 2 in blue. The residuals of group 2 concentrate around 0, which indicates a small difference between two computations. However, group 1 has a heavy tail at the positive range. That is, most abundances of group 1 are corrected to lower values because the SGS reads must be shared with novel isoforms.