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Table 1 As the threshold stringency increases, the number of known imprinted genes identified as differentially expressed at a q < 0.05 reaches a local optimum while the number of significant genes decreases.

From: Detection of transcriptional difference of porcine imprinted genes using different microarray platforms

Effects of filtering at various thresholds on the Affymetrix Human array
Filter Thresholds PM Threshold Number of Probes After Filtering % Probes After Filtering % Probe Sets Remaining Number Significant (q < 0.05) Number Known Imprinted (q < 0.05) Number Significant (padj< 0.05) Number Known Imprinted (padj< 0.05)
No filter 0.000 604,258 100.0% 100.00% 21 4 8 2
Median 7.655 361,110 59.8% 99.11% 20 6 7 2
75% quartile 8.479 197,484 32.7% 92.80% 14 6 4 2
1 standard deviation above mean 9.104 113,455 18.8% 79.20% 6 3 3 2