Fig 1.
a. Diffusion of heat from a single query gene in the upper left, denoted with a green diamond, demonstrates that heat diffusion recapitulates network distance to the query set. b. A local network hypothesis for Vemurafenib resistance in cell line LOX-IMVI, correcting for a responsive cell line, A375. LOX-IMVI mutated genes appear outlined in red. The original Vemurafenib query genes appear as green diamonds. Three interaction types are present in this network: Grey dotted lines are protein-protein binding interactions, green arrows indicate control of localization, and blue arrows indicate phosphorylation.
Fig 2.
Cytoscape example screenshots.
a. Cytoscape after a simple diffusion query. The selection filter is set to pick the top 10 percent most relevant genes by rank to the input query. b. The filter settings for the selection of the subnetwork that is closely related to the Vemurafenib genes and the mutations in the LOX-IMVI cell line, but not the A375 genes. c. The filter settings for the original the query’s first neighbors that were not in the result network from step 15.