Quantitative Proteomics Using Reductive Dimethylation for Stable Isotope Labeling

The overall goal of this procedure is to compare the concentrations of many proteins between samples by mass spectrometry using ready proteomics. This is accomplished by first digesting the protein from each sample to generate peptide mixtures. Next, the two samples are mixed, and peptides in the mixed sample are fractionated and desalted.

Next, the mixed sample is then analyzed by mass spectrometry. Finally, the peptides are identified by comparing the MS two spectra to a target decoy database of all potential peptides in the samples and the relative abundance of peptides between the samples are quantified. Ultimately, ready proteomics enables the quantification of the relative abundance of many proteins between complex samples.