Have you guys run any TMT proteome and/or phosphoproteome dataset acquired on (non-Zoom) Astral instruments in MaxQuant? I'm sorry to be blunt, but the data are absolutely rubbish, both from an ID's **and** quantification perspective. <img width="2645" height="970" alt="Image" src="https://github.com/user-attachments/assets/0bfaec2b-5b48-4a54-8dc6-b42e4a21680d" />
Have you guys run any TMT proteome and/or phosphoproteome dataset acquired on (non-Zoom) Astral instruments in MaxQuant?
I'm sorry to be blunt, but the data are absolutely rubbish, both from an ID's and quantification perspective.