1. PLGEM parameters are reasonably stable to decreasing number of replicates.
PLGEM parameters are reasonably stable to decreasing number of replicates. A series of simulations was performed to test the effect of randomly removing one or more replicates from the indicated dataset. A total of 100 random deletions were performed for each indicated number of retained replicates (x axis label). Matrix rows associated only with zero values after the column removal step were discarded before fitting a PLGEM. For each generated dataset a Pearson's correlation coefficient (A), an adjusted r2 value (B), a PLGEM slope (C), and a PLGEM intercept (D) were recorded. Circles and error bars, respectively, represent means and standard deviations of the indicated PLGEM parameters obtained from the corresponding 100 simulated datasets.
Norman Pavelka et al. Mol Cell Proteomics 2008;7:
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