1. Identification of differentially abundant proteins in the yeast growth phase NSAF dataset.
Identification of differentially abundant proteins in the yeast growth phase NSAF dataset. The 511 proteins consistently identified in both the LP and the SP samples in at least three of four biological replicates of the yeast growth phase NSAF dataset (gray dots) were plotted in the space defined by the base 2 logarithm of the ratio of the average NSAF value of the protein in the SP samples over the average NSAF value in the LP samples (y axis) and the base 10 logarithm of the average NSAF value of the protein in the LP samples (x axis). Highlighted in the same plot are the 100 proteins with the most extreme -fold changes (small red circles), with the 100 most extreme STN ratios (medium goldenrod circles), or with the 100 most extreme PLGEM-STN ratios (large blue circles). The red dashed lines delineate the boundaries separating the 100 proteins with the largest -fold changes from the other 411 proteins; the blue dashed lines separate the 100 proteins with the highest PLGEM-STN ratios from the remaining 411 proteins. The data points for Spt6 and Rpl8a are highlighted and described under “Results”.
Norman Pavelka et al. Mol Cell Proteomics 2008;7:
© 2008 The American Society for Biochemistry and Molecular Biology