Web-based software for rapid top-down proteomic identification of protein biomarkers, with implications for bacterial identification.

ABSTRACT: We have developed web-based software for the rapid identification of protein biomarkers of bacterial microorganisms. Proteins from bacterial cell lysates were ionized by matrix-assisted laser desorption ionization (MALDI), mass isolated, and fragmented using a tandem time of flight (TOF-TOF) mass spectrometer. The sequence-specific fragment ions generated were compared to a database of in silico fragment ions derived from bacterial protein sequences whose molecular weights are the same as the nominal molecular weights of the protein biomarkers. A simple peak-matching and scoring algorithm was developed to compare tandem mass spectrometry (MS-MS) fragment ions to in silico fragment ions. In addition, a probability-based significance-testing algorithm (P value), developed previously by other

SUBMITTER: Fagerquist CK 

PROVIDER: S-EPMC2704838 | biostudies-literature | 2009 Jul

REPOSITORIES: biostudies-literature