Fig. 7.

Dataset 5: Mouse—phosphorylation—2mix-TMT, analysis with MSstatsPTM. A, the overlap of differential modified peptides for the PTM model with and without global protein level adjustment across all pairwise comparisons. B, comparing the profiling of protein TTP with the phosphorylation at site S178. The individual PTM and protein features are shown in gray, while the summarization is highlighted in red. The plots are separated according to TMT Mixtures 1 and 2. PTM, posttranslational modification; TMT, tandem mass tag.