AhR can also regulate other gene expression, for example TGFβ1, independently of TCDD [36].
For other gene expression studies, samples were normalized to 18sRNA and 2ΔΔCt analysis applied.
However, as for any other gene expression system, there are limitations and experiments must be carefully controlled.
Besides Hbb-y upregulation, most other gene expression changes were less than 4-fold in Sox6 mutant samples (Fig. 5A).
In addition, we retrospectively tested UGET and other gene expression based prioritization tools to identify disease-causing genes within known linkage intervals.
Pc RNAi in the Drosophila embryo results in the loss of the majority of trans-repression by Myc, among many other gene expression changes [16], [26].
Understanding prognostic signatures discovered by statistical methods that are agnostic with respect to biology could be facilitated by comparison to other gene expression signatures identified with a predefined hypothesis and linked to particular biological processes.
All other gene expression assays were designed using the Roche Universal ProbeLibrary assay design software (Advanced primer3 settings) and were tested for maximum efficiency by standard curve analysis (slope = 3.1 3.6).
Our second approach for determining the primitive nature of the profiles involved a systematic comparison of our profile with five other gene expression profiles from embryonic (ESC), hematopoietic (HSC), neuronal (NSC) [16], [17], skin [18] and liver [19] stem cells.
Therefore, the effect of the two SNPs in IQGAP2 and TGM3 on drug response and other gene expression might result from the effects of either known or unknown polymorphisms linked to those two SNPs.
Other gene expression studies during organogenesis [26], [27], [28] have demonstrated the need for complimentary high resolution validation to more finely dissect the relationship between gene expression and anatomical organization.
