Additional file 2: Figure S1. of The role of nucleotide composition in premature termination codon recognition

For each binary feature (x-axis) and transcript group (colors), the bars show the percentage of transcripts in which the feature is present. Error bars indicate one binomial standard deviation. (A) The transcripts were classified by the standard classification scheme. (B) The transcripts were classified by the strict classification scheme. Figure S2. The magnitude A − 0.5, where A is the effect size of each non-binary feature in the non-redundant feature set, and where the transcripts were classified using the strict criterion. Red depicts features with effect size A − 0.5 ≥ 0.1, blue depicts features with effect size A − 0.5 ≤ − 0.1, and green depicts features with effect size − 0.1 < A − 0.5 < 0.1. (A) NMD-targets are compared to unaffected transcripts. (B) Destabilized transcripts are compared to unaffected ones. (C) NMD-targets are compared to destabilized transcripts. Figure S3. NMD-targets are compared to unaffected transcripts, when only transcripts that do not have isoforms harboring 3’UTR EJC were taken into account. The bars show The magnitude A − 0.5, where A is the effect size of each non-binary feature in the non-redundant feature set. Red depicts features with effect size A − 0.5 ≥ 0.1, blue depicts features with effect size A − 0.5 ≤ − 0.1, and green depicts features with effect size − 0.1 < A − 0.5 < 0.1. Figure S4. A schematic description of the different parameters used to classify transcripts into stabilized, unaffected, and destabilized. (PDF 231 kb)