Influence of mass resolution on species matching in accurate mass and retention time (AMT) tag proteomics experiments.

摘要: Diverse mass spectrometric instruments have been used to provide data for accurate and retention time (AMT) tag proteomics analyses, including ion trap, quadrupole time-of-flight, Fourier transform spectrometry (FTMS). An important attribute of these instruments, beside accuracy, is their spectral resolution. In fact, the ability separate peaks with close m/z values likely play a major role in enabling species identification matching analyses very complex samples. FTMS, resolution directly proportional detection period can therefore be easily tuned. We took advantage this feature investigate effect on an AMT experiment. Using Arabidopsis thaliana chloroplast protein extract as prototypical 'real-life' sample, we compared number detected features, optimal tolerance matching, matched false discovery rate obtained at various settings. It appears that while total matches not significantly affected by reduction range investigated, confidence level identifications drops evidenced estimated rate.