Simultaneous Genome-Wide Inference of Physical, Genetic, Regulatory, and Functional Pathway Components
Figure 5
Systems-level analysis of inferred networks.
In all cases, continuously weighted networks were binarized by choosing an edge cutoff three standard deviations above mean, retaining ∼1% of all edges. A) The degree distribution for all 30 of our predicted interactomes agrees strongly with a scale-free network topology. B) Conditional probabilities for a gene to appear in the top 5% of each pair of networks' degree distributions. Similarity indicates that a pair of networks share the same high-connectivity genes and thus represent functional activity carried out by similar sets of proteins. C) Graphlet degree distributions compared using the GDD metric between the 13 leaf interactomes in our interaction ontology. Network pairs with greater similarity demonstrate related local network topologies, suggesting that comparable functional modules might be employed in the two interactomes (e.g. between phosphorylation and synthetic interactions or ubiquitination and post-translational regulation).