The CAVD disease module (calcific stage -- see below) highlighted in yellow in the global PPI network. [Schlotter and Halu et al. Circulation, 138 (4), 377-393 (2018)]

The largest connected component of the calcific stage subnetwork (calcific stage of the CAVD disease stage proteome). The subnetwork is generated by mapping the calcific stage proteome onto the protein–protein interaction (PPI) network. The node size indicates the number of connections (degree), and the node color indicates the betweenness centrality (blue, low betweenness centrality; red, high betweenness centrality). [Schlotter and Halu et al. Circulation, 138 (4), 377-393 (2018)]

Screenshots from the interactive web applet (see the GitHub page for details) where the respective molecular (GO:BP and gene overlap) or phenotypic (RR comorbidity or MimMiner) similarity measure between any two diseases within a multiplex disease community can be inspected. [Halu et al. npj Systems Biology and Applications, 5 (1) pp: 15 (2019)]

The connections between the largest 29 disease communities which arise from the bridge diseases common to both communities. The number within each band represents the disease community number, and the tickmarks outside the spheres count the number of bridge diseases shared. Diseases that bridge multiplex disease communities are labeled within the respective chord. Radar plots from Figure 3 depicting the molecular and phenotypic similarities of diseases contained within communities are shown next to their respective communities. [Halu et al. npj Systems Biology and Applications, 5 (1) pp: 15 (2019)]

(Left) Multiplex disease network with both layers superimposed. Nodes represent diseases and green and blue links represent disease relationships in the phenotype-based and genotype-based layer, respectively. Overlapping links are marked by magenta links. (Right) Multiplex disease network with only the overlapping links shown for clarity. [Halu et al. npj Systems Biology and Applications, 5 (1) pp: 15 (2019)]

The global superimposition of co-abundance networks and the literature-derived PPI network, where the same force-directed network layout was used, preserving the spatial positions of nodes. The depicted PPI network was pruned to contain only the proteins in the co-abundance networks. [Halu et al. eLife, 7, e37059 (2018)]

The entire literature curated PPI network with co-abundance edges from all three stimulation conditions, providing a global view of the distribution and connectivity of co-abundance edges and drug targets. A force-directed layout algorithm was used to visualize the networks. (Inset) Toy network depicting the drug target prioritization scheme: For each candidate protein (green node), the shortest path length to each CVD drug target (blue nodes) is calculated and the proximity score PS(c) is calculated (see Materials and methods). Shortest paths between the candidate and CVD drug targets are denoted with the thicker edges and may consist of both PPI and co-abundance edges. [Halu et al. eLife, 7, e37059 (2018)]

The global network of drug-target interactions from the Drug-Gene Interaction database (DGIdb). Red nodes denote drugs and blue nodes denote their targets. [Manuscript in preparation]

Short animation showing proposed microgrids in Cambridge, MA. The colors denote the grid demand per user in the microgrid throughout the day for 20% solar adoption. [Halu et al. Science Advances, 2(1), e1500700 (2016)]