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We identified miRNA master regulators (MRs) of pair of pathways.
We generated a Support Vector Machine classifier from each pair of pathways listed in Table 2.
We found miRNAs that have a significant target genes in the pair of pathways with both p values < 0.01.
But, the pathway crosstalk, as a pair of pathways, also plays important roles in the change of phenotypes [ 25].
The pair of pathways Acute Phase Response Signaling and HIF1 Signaling that obtained a good performance in both TCGA dataset and GSE39004 (AUC value 0.92 and 0.88, resp).
hsa-mir-181b-2 seemed to regulate the pair of pathways that obtained the best AUC values in both TCGA dataset and independent GSE39004 dataset.
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Every pair of pathway readouts contains more asymptotic memory than either constituent signal, and the triple pathway readout contains more asymptotic memory (at 1.57 bits) than any of the constituent pairs (see Figure 7).
At the end of all 50 bootstraps (runs) we selected a list of the top 10 pairs of pathways ordering according a decreasing frequency that each pair of pathway was selected in the 50 runs.
Here, the co-expression value of a pair of pathway was presented by the arithmetic average of Jaccard coefficient and overlap coefficient (see Methods section for details).
In a biological point of view, a pair of pathway can interact with each other if they are expressed at the same time and in the same place, e.g. tissue.
Step 5: Selection of the Best Pairs of Pathways.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com