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The second one will show the genes coexpressed with the gene that maintains the high-correlated expression relationship with the gene of interest.
Among the 37 predicted target genes showing an inverse expression relationship with the 3 miRs, four genes were identified as Interferon Regulated Genes (IRGs) according to the INTERFEROME database [ 32].
The genes of the skeleton of a set of coexpressed genes are those genes of the set that maintain a high-correlated nonlinear expression relationship with the skeleton of the other sets.
These genes coexpressed with the skeleton will maintain the same type of nonlinear expression relationship with the other sets of coexpressed genes the closer they are to a y = x relationship with respect to the genes of the skeleton.
Microarray analysis revealed that 37 out of 1981 genes, predicted targets of the 3 miRs, showed an inverse expression relationship with the corresponding miR in HCV clones, as expected for true targets.
The expression relationship between the sets of coexpressed genes is defined by the expression relationship between the skeletons of these sets, where this skeleton represents the coexpressed genes with a well-defined nonlinear expression relationship with the skeleton of the other sets.
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In these networks, all the sets of coexpressed genes maintain a nonlinear expression relationship with each and every one of the other sets of coexpressed genes of the network.
Second, if two genes maintain an expression relationship with a certain type of curve, the genes coexpressed with these two genes maintain expression relationships of the same type between them.
About one half predicted targets did not show the expected inverse expression relationship with miR level, but this result is not surprising.
Shirodkar, A. V. et al. A mechanistic role for DNA methylation in endothelial cell aECa-enriched gene expression: relationship with DNA replication timing.
For example, QKI, MAP2 and BNC2 have an inverse expression relationship with all of their regulator miRNAs.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com