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MS1 analysis_Lipidomis_DDA data

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MS1 analysis_Lipidomis_DDA data SMohan  2018-06-07 00:01
 

Hi there,

I have a DDA lipidomics data (acquired both in negative as well as positive mode). I know the m/z I am interested in and I want to quantify these m/z's in my data. Is there a way that I can have XIC (for MS1 species) for these features ?

I am trying to import the data in targeted fashion ( Transition setting --> Full scan --> isotope peak included --> count; orbitrap; MS/MS filtering --> None) and inserting the list of m/z but I am unable to get the XIC for these ions (while Xcaliber gives good XIC for these features).

Thanks a lot for the help!. It will save us from a lot of manual analysis in Xcaliber

Sonali
 
 
Nick Shulman responded:  2018-06-07 00:09
One thing that you might need to do is tell Skyline that you are interested in precursor ions.
To do this, you go to:
Settings > Transition Settings > Filter
and add "p" to the list of ion types

Other than that, I am not sure what might be going wrong. It might be helpful if you sent us your Skyline document.
In Skyline, you can use the menu item:
File > Share > (complete)
to create a .zip file containing your Skyline document and supporting files.

If that .zip file is less than 50MB you can attach it to this support request.
Otherwise, you can upload it here:
https://skyline.ms/files.url

you could also send us one of the raw files that you are trying to extract chromatograms from.