Exact(13)
Therefore, experiments to study the biological relevance of these modest fold changes are important to evaluate the significance of these changes.
As we initially identified an over-representation of ribosomal genes and these tend to be highly expressed, which reduces the dynamic range of their fold changes, we used a relatively modest fold change criteria (1.3) in combination to our statistical threshold (q<0.1).
The Rgs2 signature shows modest fold enrichments in both the turquoise (fold enrichment = 1.21-fold; hypergeometric P value = 0.004) and the red (fold enrichment = 1.45-fold; hypergeometric P value = 0.02) modules although it only reaches significance P<0.01 in the turquoise module.
The majority of altered sites showed modest fold changes.
19 Genes related to apoptosis were affected by FOS with only modest fold changes.
However, for this latter group of genes with modest fold change values, the microarray and qPCR data were always within four fold of each other.
Similar(47)
In general, we observed modest fold-changes in TF gene expression across all of the time courses and treatments.
To independently verify apparent differences in gene expression we selected 11 genes that showed modest fold-changes for at least one time point within at least one of the four regenerative time courses.
Concerning the overall amplitude of oscillations, photoreceptor transcripts showed modest fold-changes, ranging from about 2× (PHYF) to 7× (PHYB2) (Figure 4), compared to other diurnally regulated and circadian genes like LHC4 and GI (see below).
Second, baseline suppression of the LDLRAP1 transcript would have to reach near 100% suppression despite the modest fold-change in miRNA.
ROAST was found to have good power to detect sets containing DE genes with very modest fold-changes, across a range of scenarios (Supplementary Tables S3 and S5).
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