|Peak removal from multi-injection replicate||Julienlab||2020-10-06|
I am analyzing PRM data collected as a multi-injection replicate (2 injections per sample) however for ~10% of my targets, skyline is quantifying the same peptide in both injections when it should only be quantified in one.
I have attached a pdf document showing an example of this where the first page is the correctly identified peak from the second injection as found in all four samples. The second page shows the chromatogram from injection 1 which should not identify this peptide, however it is still being quantified. The dotp scores in these cases are low and appear to be a combination of the two injections instead of only injection 2.
Is there any way to remove single injections from one peptide so the dotp score only reflects one injection?