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Based on the same type of information as the previous set, we established 58,275 functional associations among those proteins that are regulated by the same regulator.
A regulon is a basic unit of the database that represents a set of target genes/operons that are co-regulated by the same regulator (TF or RNA motif) in a particular genome.
A module network (Segal et al., 2003), which is a statistical model developed for uncovering regulatory modules from gene expression data, was extended to incorporate genotypes of regulators, such that the expression of genes regulated by the same regulator was explained by the variation of both the expression level and the genotype of the regulators (Lee et al., 2006).
Startups may dismiss these foundational building blocks as just "dumb pipes" or point to the damage done to banks' reputations in the last financial crisis, but the truth is that the average consumer is far more likely to put their cash into a major bank than a months-old startup — even if both are overseen by the same regulator.
These apparent opposite roles, as controlled by the same regulator, demonstrate that OCP3 has distinct functions in basal and induced JA-dependent defenses.
Identification of genes that have similar patterns of expression allow for the identification of gene clusters controlled by the same regulator or the identification of processes parallel to the process in which the gene of interest is involved.
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Expression profiles of transcriptional regulators and their targets are correlated in many cases, and genes regulated by the same regulators are likely to be co-expressed [ 34- 37].
Interestingly, emerging evidence suggests that cell differentiation and proliferation can be controlled by the same regulators.
Since regulation of autophagy and apoptosis are intimately connected and sometimes controlled by the same regulators (Thorburn, 2008), the nature of local signals deciding on either process for hypertrophic chondrocytes in different locations has yet to be identified.
For example (Fig. 1a), the expression values of all the genes in a G2/M module can be predicted by the level of the same regulator (Mob1), in the same way.
Overall, even though the two data compendia appeared to be substantially different as far as dominant activity profiles are concerned, transcriptional profiles of as many as 1407 genes and 773 multigene operons could be explained at least in part by the activity of the same regulator(s) in both data sets.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com