Fig. 3: Ubiquitylation analysis of breast cancer PDX models.

a Schematic diagram showing experimental design used to enrich di-Gly modified peptides from the Luminal and Basal breast cancer PDX models. b Pearson correlation between Luminal and Basal PDX replicates (n = 5 process replicates). Boxplot depicts upper and lower quartiles, with median shown as a solid line. Whiskers show 1.5 interquartile range. Source Data are provided in Supplementary Data 7a. c Scatter plot showing log2 fold-change between Basal and Luminal PDXs, for expression of ubiquitylated sites and the corresponding protein. The proteins that were upregulated or down-regulated exclusively at the level of their ubiquitylation are indicated by red or blue points, respectively. d Pathway enrichment of proteins regulated primarily at the level of ubiquitylation.