Table 1.
Summary of proteins and peptides identified in different biofluids using the standardized workflow.
| Protein IDs |
Peptide IDs |
||||||||
|---|---|---|---|---|---|---|---|---|---|
| Observable | Reliable | Reproducible | Quantifiable | Observable | Reliable | Reproducible | Quantifiable | ||
| High-throughput | Total Obsa | >2 Obs/day | CV < 30% | CV < 30% r2b > 0.8 | Total Obs | >2 Obs/day | CV < 30% | CV < 30% r2 > 0.8 | |
|
| |||||||||
| Naive plasma | Multi-day | 240 | 161 | 133 | 98 | 1101 | 772 | 577 | 412 |
|
| |||||||||
| mean /day | 215 (3) | 181 (5) | 163 (4) | 117 (4) | 1021 (41) | 903 (61) | 857 (72) | 574 (18) | |
|
| |||||||||
| Depleted plasma | Multi-day | 681 | 324 | 202 | 117 | 2190 | 1216 | 1108 | 321 |
|
| |||||||||
| mean/day | 616 (13) | 433 (31) | 318 (18) | 146 (8) | 1996 (53) | 1490 (102) | 1376 (92) | 353 (31) | |
|
| |||||||||
| Dried blood | Multi-day | 365 | 236 | 189 | 121 | 823 | 530 | 466 | 320 |
|
| |||||||||
| mean/day | 350 (5) | 280 (5) | 223 (4) | 129 (3) | 775 (7) | 618 (8) | 546 (15) | 341 (7) | |
|
| |||||||||
| Combined plasma | Multi-day | 754 | 378 | 266 | 144 | 2676 | 1547 | 1390 | 887 |
|
| |||||||||
| mean/day | 674 (15) | 486 (29) | 383 (15) | 169 (6) | 2434 (74) | 1875 (127) | 1770 (115) | 1003 (42) | |
|
| |||||||||
| Mid-throughput | |||||||||
|
| |||||||||
| Naive plasma | Multi-day | 572 | 256 | 168 | 152 | 2367 | 1416 | 1005 | 950 |
|
| |||||||||
| mean/day | 515 (45) | 381 (82) | 303 (59) | 249 (38) | 2184 (186) | 381 (82) | 1691 (327) | 1435 (193) | |
|
| |||||||||
| Depleted plasma | Multi-day | 462 | 321 | 281 | 198 | 2003 | 1618 | 1493 | 1051 |
|
| |||||||||
| mean/day | 438 (8) | 373 (7) | 333 (5) | 221 (3) | 1992 (25) | 1765 (33) | 1678 (38) | 1108 (26) | |
|
| |||||||||
| Dried blood | Multi-day | 564 | 365 | 279 | 185 | 1572 | 1087 | 874 | 554 |
|
| |||||||||
| mean/day | 518 (5) | 426 (15) | 353 (14) | 209 (7) | 1451 (5) | 1238 (27) | 1081 (68) | 612 (18) | |
a
Obs, observations.
b
r2, square of the correlation coefficient.