Fig. 3.

Overall depths of the comparative analysis. A, for each tissue, each bar defines the number of unique peptides that were integrated with Riana with quantified isotope ratios at each experimental time point in the labeling period. Because amino acid (AA) labeling requires peptides lysine for turnover calculation, only peptide sequences with a single lysine residue are included here for fair comparison. B, for each tissue, the cumulative number of peptides (solid line) and proteins (dashed lines) quantified at increasing numbers of minimal time points quantified in the heavy water (HW) labeling (green) and AA labeling (blue) datasets. For instance, at x = 6, the y-axis numbers denote the number of peptides or proteins quantified in at least six time points in a labeling method and tissue.