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Table 1 Simulated experiments used to evaluate false positive identification rates of ΣXCorr and ΣXCorr*.

From: ProtQuant: a tool for the label-free quantification of MudPIT proteomics data

Simulated Experiment

Spiked Samples Used as Replicates for Control

Spiked Samples Used as Replicates for Treatment

1

1200 & 3

120 & 12

2

1200 & 3

120 & 6

3

1200 & 6

120 & 3

4

1200 & 6

12 & 3

5

1200 & 12

120 & 6

6

1200 & 12

120 & 3

  1. Five technical replicates of a P. multocida sample were spiked with different concentrations (3, 6, 12, 120, & 1200 pmol) of standards. Pairs of the spiked samples were used to represent "control" and "treatment" in simulated experiments. Any non-spiked proteins that are identified as differentially expressed are false positives (see Figure 4).