Fig. 4

The lung and skin network structures indicate distinct tissue microenvironments influence fibrosis. The skin and lung networks were compared by first finding the giant component of the lung network and then collapsing to nodes only found in both the skin and lung networks (which are termed the common skin and common lung networks). a A scatterplot of high probability edges (>0.5 in both networks) illustrates that pairs of genes with a higher probability of interacting in skin than lung exist and vice versa. Edges are colored red if the weight (probability) is 1.25 times higher in lung or blue if it is 1.25 times higher in skin. b The differential adjacency matrix where a cell is colored if the edge weight in a given tissue is over and above the weight in the global average and tissue comparator networks. For instance, a cell is red if the edge weight was positive following the successive subtraction of the global average weight and skin weight. Community detection was performed on the common lung network to identify functional modules; common functional modules largely recapitulate modules from the full lung network. Representative processes that modules are annotated to are above the adjacency matrix. The annotation track indicates a gene’s functional module membership. Nodes (genes) are ordered within their community by common lung within community degree. A fully labeled heatmap is supplied as Additional file 30: Figure S4 and is intended to be viewed digitally. c Quantification of tissue-specific interactions in each of the five largest functional modules. d The lung-resident MØ module found in the differential lung network (consists only of edges in red in b)