Table 4.
Coverage compared with published proteome and phosphoproteome datasets
| Source | Organism | Starting material per channel |
Fractions | LC- MS/MS per replicate |
Protein coverage |
Phosphorylation sites coverage |
Quantitation method |
Instrument |
|---|---|---|---|---|---|---|---|---|
| This study | Human breast cancer cell lines |
0.67 mg |
12 TiO2 | 2h | ID: 8706 Q: 7394 |
ID: 28186 Q: 23739 |
TMT10plex- MS2 |
QE-HF |
| Paulo et al. | Human pancreatic stellate cells |
5 mg | 12 TiO2 | 3h | ID: NA Q: 8120 |
ID: 21556 Q: 16622 |
TMT9plex- MS3 |
Orbitrap Fusion |
| Radhakrishnan et al. |
Human head and neck squamous cell carcinoma |
NA | 12 TiO2 | NA | ID: 3255 Q: NA |
ID: 4920 Q: NA |
TMT7plex | LTQ- Orbitrap Velos |
| Paulo et al. | Mouse Kidney, Liver, and Pancreases tissues |
10 mg | 12 TiO2 | 3h | ID: 7900 Q: NA |
ID: NA Q: 10562 |
TMT10plex- MS3 |
Orbitrap Fusion |
| Hoffman et al. | Human muscle peptides |
NA | NA | 100 min |
Q: 4317 | Q: 11903 | TMT4plex | QE |
| Erickson et al. | Murine brain and liver tissues |
10 mg | 12 TiO2 | 3h | NA | Q: 11015 | TMT10plex | Orbitrap Fusion |