From: The influence of trematode parasite burden on gene expression in a mammalian host
Software | Number of S. mansoni sequences in DE genes (Percentage) | |||||
---|---|---|---|---|---|---|
UH Down | UH Up | UL Down | UL Up | LH Down | LH Up | |
DESeq2 | ||||||
 Trinity de novo | 0 | 28 (1 %) | 0 | 0 | 0 | 0 |
 SOAPdenovo–Trans | 0 | 43 (1.2 %) | 0 | 5 (0.3 %) | 1 (0.1 %) | 3 (0.6 %) |
edgeR | ||||||
 Trinity de novo | 0 | 92 (2.5 %) | 0 | 8 (0.5 %) | 0 | 2 (0.7 %) |
 SOAPdenovo–Trans | 0 | 77 (1.8 %) | 0 | 14 (0.6 %) | 0 | 1 (0.2 %) |
EBSeq | ||||||
 Trinity de novo | 0 | 7 (0.3 %) | 0 | 0 | 0 | 3 (0.3 %) |
 SOAPdenovo–Trans | 0 | 12 (0.3 %) | 0 | 4 (0.2 %) | 1 (0.06 %) | 9 (0.9 %) |