title: Neucode Labels for Multiplexed, Absolute Protein Quantification.
abstract: We describe a new method to accomplish multiplexed, absolute protein quantification in a targeted fashion. The approach draws upon the recently developed neutron encoding (NeuCode) metabolic labeling strategy and parallel reaction monitoring (PRM). Since PRM scanning relies upon high-resolution tandem mass spectra for targeted protein quantification, incorporation of multiple NeuCode labeled peptides permits high levels of multiplexing that can be accessed from high-resolution tandem mass spectra. Here we demonstrate this approach in cultured cells by monitoring a viral infection and the corresponding viral protein production over many infection time points in a single experiment. In this context the NeuCode PRM combination affords up to 30 channels of quantitative information in a single MS experiment.
authors.affiliation: Department of Chemistry, University of Wisconsin , Madison, Wisconsin 53706, United States.|Genome Center of Wisconsin, University of Wisconsin , Madison, Wisconsin 53706, United States.
authors.forename: Gregory K
authors.initials: GK
authors.lastname: Potts
authors.affiliation: Department of Chemical and Biological Engineering, University of Wisconsin , Madison, Wisconsin 53706, United States.|Systems Biology Theme, Wisconsin Institute for Discovery, University of Wisconsin , Madison, Wisconsin 53706, United States.
authors.forename: Emily A
authors.initials: EA
authors.lastname: Voigt
authors.affiliation: Department of Chemistry, University of Wisconsin , Madison, Wisconsin 53706, United States.|Genome Center of Wisconsin, University of Wisconsin , Madison, Wisconsin 53706, United States.
authors.forename: Derek J
authors.initials: DJ
authors.lastname: Bailey
authors.affiliation: Department of Chemistry, University of Wisconsin , Madison, Wisconsin 53706, United States.|Genome Center of Wisconsin, University of Wisconsin , Madison, Wisconsin 53706, United States.
authors.forename: Christopher M
authors.initials: CM
authors.lastname: Rose
authors.affiliation: Genome Center of Wisconsin, University of Wisconsin , Madison, Wisconsin 53706, United States.
authors.forename: Michael S
authors.initials: MS
authors.lastname: Westphall
authors.affiliation: Genome Center of Wisconsin, University of Wisconsin , Madison, Wisconsin 53706, United States.|Department of Biomolecular Chemistry, University of Wisconsin , Madison, Wisconsin 53706, United States.
authors.forename: Alexander S
authors.initials: AS
authors.lastname: Hebert
authors.affiliation: Department of Chemical and Biological Engineering, University of Wisconsin , Madison, Wisconsin 53706, United States.|Systems Biology Theme, Wisconsin Institute for Discovery, University of Wisconsin , Madison, Wisconsin 53706, United States.
authors.forename: John
authors.initials: J
authors.lastname: Yin
authors.affiliation: Department of Chemistry, University of Wisconsin , Madison, Wisconsin 53706, United States.|Genome Center of Wisconsin, University of Wisconsin , Madison, Wisconsin 53706, United States.|Department of Biomolecular Chemistry, University of Wisconsin , Madison, Wisconsin 53706, United States.
authors.forename: Joshua J
authors.initials: JJ
authors.lastname: Coon
mesh_terms: D045744:Cell Line, Tumor; D006801:Humans; D008297:Male; D011506:Proteins / Q000032:analysis*; D053719:Tandem Mass Spectrometry
chemical_list: D011506:Proteins