Cluster View

In Fig. 1D, we demonstrated EDDY’s ability to define drugs that converge upon a PH pathway; specifically, 8 small molecules were found to converge upon the rewiring of Cluster 6, a network enriched for genes associated with extracellular matrix (ECM) organization. Some of these drugs already carried known associations with ECM biology, while others such as fumonosin B1 and indisulam had not previously been linked to matrix organization.

This page contains a listing of all Drug-Mediator heatmaps of the EDDY-CTRP-PH predictions of drugs affecting differential dependency networks (DDNs) of PH gene clusters. In each heatmap, each row represents a drug, and each column a gene which was identified as a potential mediator for the cluster for a drug. A cell indicates a gene was identified as a mediator for a corresponding drug, and red color indicates there is literature support that the gene has either direct or indirect interaction with the target gene of the drug, represented by EvNet in Mediator table. Bar plots on x- and y-axes: number of drugs and mediators, respectively.

The heatmaps are ordered based on the sum of the number of mediators and the number of EvNet (literature) support, i.e., cluster_priority, where cluster_priority is the sum of the number of black cells and 2 x the number of red cells (doubly weighted to reflect literature support and EDDY-CTRP-PH predictions). Visually, the number of mediators is same as the number of non-white cells (black and red) and the number of EvNet support is same as the number of red cells in the heatmap. This will prioritize the clusters with higher number of rewiring (non-white cells) with more literature support of interactions (red cells).