The two methods, HCD-pd-ETD (blue) and HCD-alt-ETD (red), displayed distinct distributions of the observed m/z, charge state, mass of identified peptides (M+H), and glycan mass, as well as the intensity of the precursor ions and the ByonicsTM score (all y-axes)
The x-axes represent index numbers after proteins were sorted by their corresponding y-axis value from lower to higher (A)
There was limited overlap in the identified glycopeptides (B)
C, the HCD-pd-ETD method preferentially identified complex/hybrid glycans