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Table 2 Number of significant differentially expressed genes (P < 0.05) per individual identified using Cuffdiff and DESeq

From: Evaluating whole transcriptome amplification for gene profiling experiments using RNA-Seq

  Cuffdiff DESeq
Differentially expressed genes (Raw RNA vs. WTA) Percent of total shared genes between conditions Differentially expressed genes (Raw RNA vs. WTA) Percent of total shared genes between conditions
Rat 1 0 - 20 0.11%
Rat 2 16 0.11% 15 0.08%
Rat 3 19 0.14% 23 0.13%
Rat 4 18 0.13% 22 0.12%
Rat 5 0 - 22 0.12%
Rat 6 17 0.12% 25 0.14%