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This result indicated that neighboring miRNAs might be regulated by common regulators at similar conditions and function together, and then whose dysfunctions would result in the same disease.
The promoters of many COR genes contain one or more copies of the widely conserved cis-acting element, C-repeat/dehydration response element (CRT/DRE) having the CCGAC core sequence [ 9], indicating that multiple cold responses are coordinately regulated by common regulators.
Instead, promoter analysis has found co-regulated genes are often regulated by common transcription factors [ 13, 17, 18] The co-expression of clustered genes may be partially regulated by the interaction of common promoter elements and transcription factors [ 18].
We therefore utilized computational methods to test the hypothesis that some of the genes within this large up-regulated cluster are co-ordinately regulated by common transcriptional mechanisms.
This coordinated down-regulation of the HSP family genes indicated that these genes were regulated by common mechanisms.
Our findings suggest obesity and physical activity have a shared genetic influence that is regulated by common central neural pathways that merit further investigation.
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This means that cofunctional subpathways regulated by common-tissue TFs tended to form many small clusters.
In short, we inferred that the cofunctional subpathways were regulated by common-motif, common-family, or common-tissue TFs.
The co-expression of these miR-200 loci suggests that these miRNA clusters might be co-regulated by common regulator(s) and function together.
The co-expression of the miR-497 – 195 cluster suggests that these miRNAs could be co-regulated by common transcriptional factor(s) and they may have some common functions.
In recent years, the accuracy and reliability of computer programs predicting miRNA targets has greatly improved, and novel strategies have been developed for predicting miRNA targets that take into account that miRNAs and their target genes are co-regulated by common transcription factors [ 15].
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