Import of Mascot error tolerant searches in Skyline

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Import of Mascot error tolerant searches in Skyline ingo.wohlgemuth  2020-07-02
 

Hey Skyline team,

I try to import error tolerant Mascot searches with a focus on amino acid substitutions. While many PTMs can be imported, amino acid substitutions which were found in Mascot are often lost in Skyline (e.g L to V mutations, see picture). Is the a rational for that? How Sykline handles cases is which the delta mass could not unambiguously assigned (e.g: D to E substitution vs D methylation) when both interpretations are available in Mascot?

Thanx a lot!
Ingo