Figure 5.

Error tolerance of AmproCode. (a) Simulations of the percentage of correctly identified proteins (coverage) in the secretome via AmproCode using the composition code of Cys, Lys, Met and Asp/Glu (C,K,M,D/E) or Cys, Lys, Met and Tyr (C,K,M,Y) with different experimental precision (0.05%–10% RSD). The coverage represents a statistical average of five independently simulated coverage values. (b) Simulations of the correctly identified protein rates (coverage) of AmproCode in the secretome with different experimental precision (0.05%–10% RSD) and different residue types (four, five, six and nine in the order of Cys, Lys, Met, Asp/Glu, Tyr, Arg, His, Trp and Ser). The coverage represents a statistical average of five independently simulated coverage values. (c) qPCR quantified composition code with Tyr of URP is 2.04:1:0.00:0.95:1.00 at 10⁸ copies/μL (average of three independent replicates). The URP peptide (protein entry: UTS2B) can be identified in the top two candidates with the highest score.