ProteinProcessor: A probabilistic analysis using mass accuracy and the MS spectrum.

ABSTRACT: Current approaches to protein identification rely heavily on database matching of fragmentation spectra or precursor peptide ions. We have developed a method for MALDI TOF-TOF instrumentation that uses peptide masses and their measurement errors to confirm protein identifications from a first pass MS/MS database search. The method uses MS1-level spectral data that have heretofore been ignored by most search engines. This approach uses the distribution of mass errors of peptide matches in the MS1 spectrum to develop a probability model that is independent of the MS/MS database search identifications. Peptide mass matches can come from both precursor ions that have been fragmented as well as those that are tentatively identified by accurate mass alone. This additional corroboration enables u

SUBMITTER: Epstein JA 

PROVIDER: S-EPMC5176252 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature