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Subsequently, we have tested how differential DNA methylation is reflected on gene expression level: quantitative real time PCR of 7 genes demonstrated that in tendency, hypomethylation upon aging is associated with higher gene expression and this was significant for WISP2, ALDH1A1 and CFD (Figure S5).
This is also reflected on gene expression in CHDR and SFB and 2(d)).
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Constraints reflecting data on gene expression have previously been shown to improve the accuracy of constraint-based model predictions [ 60, 61].
This loss of function might result from disturbance in other components of the AR signaling pathway (e.g. titration of cofactors), or might reflect indirect effects on gene expression resulting from muscle growth, for example.
These downregulated genes probably reflect indirect effects on gene expression.
The authors interpret that this rapid divergence reflects positive selection on gene expression for testis.
Alternatively, this could reflect direct effects on gene expression by NO, as cGMP can increase the expression of superoxide dismutase 2 [ 52].
The suggestion that strong correlations between metabolites and transcripts may reflect metabolite effects on gene expression [ 27, 28, 36], therefore, enables integrated analysis to be used to identify potential signaling metabolites for subsequent detailed studies.
5) The effects of DKC1 knockdown on mRNA expression should be globally assessed by RNA-Seq to ascertain whether the effects on pluripotency gene expression simply reflect more general effects on gene expression.
These cell-type specific eQTLs are often quite far from the gene they are associated with and tend to have small effects on gene expression, reflecting the characteristics of enhancer elements [ 78].
To address whether the aforementioned response is due to locus-specific functions of ORC1/CDC6 or reflects a genome-wide influence on gene expression, we used RNA sequencing (RNAseq) to compare mRNA abundance in PCF Lister 427 cells 96 hr post-RNAi induction relative to uninduced cells.
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