Figure 2

Protein sequence-based inclusion list. Given a set of proteins of interest P₁ to P₆, we compute all their possible tryptic peptides a₁ to a₁₁. For each of the peptides, we calculate their m / z, and predict the RT and their likelyhood to be detectable in a given experimental setup. With these values we create a map of predicted features that are used for the inclusion list.