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They often comprise of a very large number of entities, the nodes, and the interest lies in inferring the interactions between these entities, the edges, from relatively limited data.
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Because E2F3 interact with ARNT, we can infer the interactions between two dependent genes AKT3 and CHUK and map to their gene products, protein PKB and IKK in prostate cancer pathway.
As a balance of the amount of available data and the size of the to-be-inferred network, we chose 36 out of 177 genes to infer the interactions between the 36 genes.
In the present work, we inferred the interactions between Mus musculus proteins, if their orthologs are known to be interacting in other species or part of predicted operons in bacteria.
This catalog can be used as a gold standard for testing methodologies attempting to infer the interactions between drugs in the treatment of cancer.
Nevertheless, as both are located in a critical region for the assembly of the bc1 complex, we were able to infer the interaction between mitochondrial CYB and nuclear CYT1 in a noteworthy process of intermolecular epistatic interaction between the two genomes.
To infer the interaction between two TFs using gene expression data a method has been developed based upon the hypothesis that if two TFs act cooperatively they both should bind to the promoter of their target genes, and the common targets of the two TFs should be more correlated compared to their binding alone [ 16].
Furthermore, the decision tree-based model can be used to infer the interactions not only between two domains, but among multiple domains as well.
In this paper we explored Interaction-Identifier method to infer the interaction patterns between multiple ESC regulators.
Accordingly, it can be inferred that the interactions between S and Ag were more complicated and stronger than those between S and Au, which resulted in late desorption of thiols from the surface atoms of Ag. S still bonded with the surface atoms of the pure Ag deposits after heating.
Incorporating the similarity between drugs and between targets to infer the interaction of untested drug target pairs is the essence of the read-across methodology [2].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com