Table 2.
Performance metrics for 2D (RP-RP) and 3D (RP-SAX-RP) LC-MS/MS platforms.
| Organism | Platform | Instrument | # Fractions |
Time (hr) |
μg | Unique Peptides |
Unique Proteins |
Peptides /min |
Proteins /min |
|---|---|---|---|---|---|---|---|---|---|
| S. cerevisiae | RP-SAX-RP | Orbitrap | 1 fraction | 2 | 5 | 2125 | 981 | 17.71 | 8.18 |
| S. cerevisiae | RP-SAX-RP | Orbitrap | 19 fraction | 38 | 5 | 14576 | 3111 | 6.39 | 1.36 |
| S. cerevisiae | RP-SAX-RP | Orbitrap | 51 fraction | 102 | 5 | 25091 | 3821 | 4.10 | 0.62 |
| S. cerevisiae | RP-SAX-RP | Orbitrap | 101 fraction | 202 | 5 | 26468 | 4004 | 2.18 | 0.33 |
| S. cerevisiae | RP-SAX-RP | LCQ | 236 fraction | 572 | 40 | 18359 | 2902 | 0.45 | 0.08 |
| E.coli. | RP-SAX-RP | LCQ | 37 fraction | 74 | 20 | 4254 | 923 | 0.96 | 0.21 |
| E.coli. | RP-RP | LCQ | 40 fraction | 80 | 20 | 2923 | 702 | 0.61 | 0.15 |