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However, consider a hypothetical module with only 2 principal components.
Since functionally related genes are often co-regulated by the same TF, we used GATA3 to construct a hypothetical module.
Genes whose expression values correlated with GATA3 (r > 0.4 and p < 0.0001) were considered as hypothetical module genes.
Next, this gene was used to build a hypothetical module of genes co-regulated by the same transcription factors (TFs).
Because GATA3 had the highest correlation coefficient it was chosen to construct a hypothetical module as described below.
This TF, GATA3, was used to construct a hypothetical module based on known gene interactions and co-expression data.
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What might be more interesting in Figure 8 is that, with the network information and the nonhits recovered by NePhe scores, hits detected in the RNAi screen appear to be clustered into several hypothetical modules.
Examination of these hypothetical modules and their functions indicates that the Wnt signaling pathway could be regulated at different levels with varied specificities (see Additional file 1 for details).
Thus, if the TF that regulated ITK and other genes of the TCR pathway could be identified this information could be used to find other disease-associated genes and organize them into a hypothetical disease module.
For example, Gad Saad (2007) argues that Consumer Studies will profit greatly from the addition of adaptive thinking, i.e. looking for apparent design, and by introducing hypothetical evolved modules to account for consumer behavior.
The graphic below shows a hypothetical example of module duplication and adaptation.
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