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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%