DtaRefinery: A Software Tool for Eliminating Systematic Errors from Parent Ion Mass Measurements in Tandem Mass Spectra Datasets

摘要

DtaRefinery aids in reducing the parent ion MME tolerance up to 10-fold (typically down to +/-2 ppm for hybrid instruments), and thus reduces the number of both false positive and false negative peptide identifications. With the increasing use of hybrid MS instrumentation, we anticipate that the DtaRefinery software tool will be widely used in tandem with DeconMSn, in particular for proteomics applications in which peptide identification confidence remains challenging due to a significantly increased search space. Applications DtaRefinery can benefit most include identification of peptides with post-translational modifications, identification of peptides resulting from non-specific proteolysis, and searches using exhaustively translated genomes (e.g., in all six reading frames from stop-to-stop codons as a set of putative protein sequences).