Proteome Mapping is a technique in which the proteome is analyzed by LCMS: a combination of chromatography separation and mass spectrometry. Pure protein sample is digested and run through an extended 1- or 2-D LC gradient, and the eluent injected into a LCMS instrument. MS spectra are analyzed to identify proteins of interest. Outcomes of this protein analysis are dependent on the quantity and range of proteins present. A 1D LC-MS/MS analysis will identify >1000 proteins. If the sample is complex (e.g whole cell lysate) a more sophisticated 2D LC-MS/MS protocol is used. The sample is first separated by strong cation exchanged chromatography, followed by reverse-phase chromatography and analyzed by 2D LC-MS/MS which can identify >2000 proteins in one experiment.
