1. Achieving a 35-Plex Tandem Mass Tag Reagent Set through Deuterium Incorporation
- Author
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Zuniga, Nathan R., Frost, Dustin C., Kuhn, Karsten, Shin, Myungsun, Whitehouse, Rebecca L., Wei, Ting-Yu, He, Yuchen, Dawson, Shane L., Pike, Ian, Bomgarden, Ryan D., Gygi, Steven P., and Paulo, Joao A.
- Abstract
Mass spectrometry-based sample multiplexing with isobaric tags permits the development of high-throughput and precise quantitative biological assays with proteome-wide coverage and minimal missing values. Here, we nearly doubled the multiplexing capability of the TMTpro reagent set to a 35-plex through the incorporation of one deuterium isotope into the reporter group. Substituting deuterium frequently results in suboptimal peak coelution, which can compromise the accuracy of reporter ion-based quantification. To counteract the deuterium effect on quantitation, we implemented a strategy that necessitated the segregation of nondeuterium and deuterium-containing channels into distinct subplexes during normalization procedures, with reassembly through a common bridge channel. This multiplexing strategy of “design independent sub-plexes but acquire together” (DISAT) was used to compare protein expression differences between human cell lines and in a cysteine-profiling (i.e., chemoproteomics) experiment to identify compounds binding to cysteine-113 of Pin1.
- Published
- 2024
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