The Multiplexing Protein Analysis Laboratory of the Oklahoma Nathan Shock Center uses LC-tandem MS with selected reaction monitoring (SRM) and LC-high resolution accurate mass selected ion monitoring (SIM) to measure protein abundance and isotope enrichment. The protein abundance measurements are unique among the various quantitative mass spectrometry methods because, like Western blots, proteins are carefully selected and targeted for quantification. Targeting is achieved by designing the methods to measure the abundance of several peptides, which are unique to the protein when digested with trypsin. Adding deuterium oxide during the experimental period allows the determination of the synthesis rates of targeted proteins. Therefore an investigator using the core can determine dynamic regulation of individual proteins.
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