Fig. 2.

Example of anticipated results from quantification of acetylation comparing conditions for the peptide sequence EVPVEVK(ac)PEVR. (a) Skyline target tree showing the precursor ion mass, fragment ion masses, and fragment ion intensity rankings. (b) Annotated mass spectrum showing matched fragment ions with the most abundant y9++ ion highlighted in red. (c) Fragment ion color key and legend for panels (d and e). (d) Fragment ion peak areas among three replicates of wild-type (WT) and knockout (KO) computed by Skyline. (e) Extracted ion chromatograms (XICs) of the fragment ions for this peptide from DIA data showing excellent peak shape, retention time reproducibility, and altered intensity between WT and KO