Figure 3.

Dynamic SILAC-based methods. Dynamic SILAC uses pulsed SILAC to identify isotopically labeled proteins as NSPs, and the decrease of nonlabeled is proportional to protein degradation. Multiplexed enhanced protein dynamics (mePROD) and multiplexed proteome dynamics profiling (mPDP) are both methods that combine TMT multiplexing with dynamic SILAC. mePROD also includes a ‘heavy’ booster and ‘light’ ‘noise’ channel for MS1 triggering and to improve the accuracy of quantification. mPDP creates signal amplification in the MS¹ channel by using both a ‘light’ to ‘heavy’ and a ‘heavy’ to ‘light’ switch for each condition, resulting in robust detection and quantification of synthesis and degradation by means of the individual TMT channels.