Table 3 Results from the second optimization, in which different numbers of missed cleavages and different enzyme fidelities were also investigated for the E. coli hybrid ion trap/TOF data
From: Scientific workflow optimization for improved peptide and protein identification
|  | PSMs | PSMs [M + 2H]2+ | Unique | MME- | MME+ | Missed | Fidelity |
|---|---|---|---|---|---|---|---|
Default | 14057 (+1.2Â %) | 9260 | 1292 (-1.9Â %) | 0.31 | 7.32 | 2 | full |
Optimized | 13888 (-1.2Â %) | 9282 (+0.2Â %) | 1271 (-1.9Â %) | 0.28 | 7.17 | 1 | full |