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. 2013 Mar 21;288(20):13936–13949. doi: 10.1074/jbc.M112.445841

FIGURE 2.

FIGURE 2.

Summary of total peptides and proteins identified by TAILS analysis. A and B, three-way Venn diagrams of the number of unique peptides, unique stripped peptides, and unique proteins (identified by more then one spectra) identified by MASCOT searches in experiments (Exp.) 1, Exp. 2, and Exp. 3 for DP8 (A) and DP9 (B). C, two-way Venn diagram of unique proteins (identified by more then one hit) identified from all datasets for DP8 and DP9. The intersection of C displays the number of overlapping proteins identified in both the DP8 and DP9 datasets. The number of unique peptides for each experiment takes into account all possible modifications of a given peptide, including variable oxidation of methionine residues, although the number of unique stripped peptides for each experiment refers to unique peptides after the removal (stripping) of all possible modifications. The total number of unique proteins excludes any “single hit” proteins, i.e. a protein that is not identified by any other peptide/spectra in the dataset. All peptides were identified with ≥95% confidence according to PeptideProphet. All MASCOT searches were performed against the human IPI database (version 3.16, 62,322 entries, release date 4/2006).