Table 3. A summary of discovery and targeted proteomics technologies.
| Category | Group | Quantification technology | Typical protein number | Typical sample size | Emerging technology |
|---|---|---|---|---|---|
| Discovery proteomics | DDA-MS | Label-free (LFQ) | 1,000–15,000 | 10s | BoxCar |
| Metabolic labeling (SILAC) | |||||
| Chemical labeling (TMT) | |||||
| DIA-MS | Label-free (LFQ) | 1,000–5,000 | 10s–100s | ||
| Targeted proteomics | MS-based | SRM/MRM | 10s | 10s–100s | TOMAHAQ |
| PRM | |||||
| MS-independent | Antibody-based (RPPA) | 100s | 100s–1,000s | ||
| Aptmer-based (SOMAscan) | 1,000s | 100s–1,000s |
DDA, data-dependent acquisition; MS, mass spectrometry; DIA, data-independent acquisition; LFQ, label-free quantification; SILAC, stable isotope labeling by amino acids in cell culture; TMT, tandem mass tag; SRM, selected reaction monitoring; MRM, multiple reaction monitoring; PRM, parallel reaction monitoring; RPPA, reverse-phase protein array.