How to eaxtract result from two different product ion experiement from QTOF, same precrusor, same product, different collision energy

support
How to eaxtract result from two different product ion experiement from QTOF, same precrusor, same product, different collision energy karin yanagi  2022-04-16
 

This is a run to look at free fatty acid and I have two collision energy set for each mass (for example 253.22 m/z for palmitiec acid, i setted CE as -25 and -15) I want to look at the product ion as same mass as the prevcursor in different collision enegy. They should have different intensity, but no matter how i define the collision energy in the transition list. It seems to lead me to same chromtagram.

 
 
Nick Shulman responded:  2022-04-16
Title: How to extract result from two different product ion experiement from QTOF, same precrusor, same product, different collision energy
When Skyline is reading SRM chromatograms Skyline does not pay attention to the collision energy. You just get the first chromatogram that most closely matches the Q1 and Q3 m/z's

If you want to have two sets of chromatograms with different collision energies, I would recommend changing the Q1 value by a small amount such as .01 and also have two precursors in your Skyline document whose m/z's match that.
--Nick
 
karin yanagi responded:  2022-04-17
That clarify my question, I will do that next time. Thanks for the quick respond!