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Table 1 Percentage of total genes with a significant p-value after each normalization technique. Site p-values correspond to the association of site with gene expression and Sample p-value corresponds to the association of sample and gene expression.

From: A protocol to evaluate RNA sequencing normalization methods

 RawTMMDESeqQuantRPKMTPMLog2
% site p-values<0.050.950.950.940.920.870.901.00
% sample p-values<0.050.370.270.350.340.360.490.69
Variance site p-values1.40E-021.30E-021.39E-022.00E-022.73E-022.28E-024.44E-77
Variance sample p-values8.73E-028.78E-028.61E-028.42E-028.62E-028.12E-026.37E-02
Median site p-value2.28E-591.11E-645.22E-512.60E-581.64E-201.85E-350.00E+00
Median sample p-value2.00E-012.98E-012.17E-012.30E-012.13E-015.71E-021.28E-05