Fig. 2.

Transcriptional changes associated with RPL10 R98S. a Correlation between changes in total mRNA and RPF levels. Only genes with counts in both ribosome footprinting and matched mRNA sequencing libraries are plotted (n = 10,645). Reported log2-transformed fold changes were calculated by DESeq2. Cor Pearson correlation coefficient. b Principal component analysis based on mRNA levels (normalized read counts) from the mRNA-sequencing dataset associated with ribosome footprinting. c, d Network representation of transcriptionally upregulated (C) or downregulated genes (D) in RPL10 R98S cells. Upregulated or downregulated genes are displayed as white circles and the 8 top scoring transcription factors predicted as their regulators (iRegulon) are shown by colored squares. For each transcription factor, the number of genes that it is predicted to regulate in our mRNA-sequencing data and the normalized enrichment score (NES) are reported. A transcription factor-binding motif can be shared by several members of a transcription factor family. Only the highest scoring one as predicted by iRegulon is shown, while other transcription factors of the family may be responsible for observed mRNA expression changes. e Immunoblot analysis of Helios/Ikzf2 expression in RPL10 WT versus R98S expressing Ba/F3 and Jurkat cells. P-values were calculated using a two-tailed Student’s t-test. All box-plots show the median and error bars define data distribution