Table 1.
Protein identifications observed within the immunodepleted peak 1 samples and the whole-serum pool when using the LTQ-Orbitrap Velos at the 1 and ≥2 unique peptide levels, with either 4 or 5 h LC-MS/MS runs, and with three injections per sample
| Sample | Identifications (4 h run) | Identifications found only in that sample (2 unique peptides, 4 h run) | Identifications (5 h run) | ||||
|---|---|---|---|---|---|---|---|
| 1 Unique peptide | ≥2 Unique peptides | Total | 1 Unique peptide | ≥2 Unique peptides | Total | ||
| Whole-serum pool | 107 | 159 | 266 | 14 | N/A | N/A | N/A |
| MARS6 peak 1 | 127 | 234 | 361 | 5 | N/A | N/A | N/A |
| MARS14 peak 1 | 133 | 272 | 405 | 19 | 126 | 306 | 432 |
| Prot20 peak 1 | 141 | 301 | 442 | 57 | 115 | 311 | 426 |