Cannot Import Top5 Data from a QExactive

Cannot Import Top5 Data from a QExactive khader awwad  2019-04-18

Hi all,

I analyzed a antibody digestion with a Top5 method on QExactive. In Skyline I generated the peptide list. I wanted to import the files in skyline, but I get the error message that chromatograms cannot be loaded before full scan data are enabled.

I have attached the error message from skyline.

The questions are:
Is the import of Top5 data not possible in skyline?
Or where can I enable full scan data in skyline?

Thank you in advance for your help.



Nick Shulman responded:  2019-04-18
That error message is saying that you should go to:
Settings > Transition Settings > Full Scan
and tell Skyline whether you are interested in extracting chromatograms from MS1, MS2, or both.

You should take a look at the MS1 full scan filtering tutorial:

That tutorial will show you how to import DDA peptide search results and extract chromatograms from MS1 scans.
-- Nick