Proportion (percentage) of phosphosites localised with high confidence (<1% false localisation rate) with different fragmentation strategies (EThcD or HCD) using either high resolution (OT) or low resolution (IT) MS/MS data acquisition of a TiO2-enriched U2OS cell lysate. Data were interrogated using either Andromeda/PTM-score or MASCOT/ptmRS. Information was extracted from ref. 49.
| Search algorithm | EThcD | HCD | |
|---|---|---|---|
| Orbitrap (OT) | Andromeda/PTM-score | 76 | 50 |
| MASCOT/ptmRS | 86 | 76 | |
| Ion trap (IT) | Andromeda/PTM-score | 76 | 37 |
| MASCOT/ptmRS | 83 | 60 | |