Fig 2

Fig 2 PPI networks reveal connections between known and candidate CHD genes.

A. A Protein-Protein Interaction (PPI) network showing the evidence-based interactions among the proteins encoded by our 245 candidate CHD genes (yellow halos; S4 Table), 132 known CHD genes (green halos; S1 Table), and candidate genes that are also known CHD genes (blue halos, 11 genes from Fig 1D). Interactions between proteins/nodes are indicated by a single grey line, whose thickness corresponds to the strength of the supporting data. This network consists of 365 proteins/nodes, contains 980 edges, and is associated with a PPI enrichment P value < 1.0E-16. Purple nodes (Proteasome cluster genes) indicate the 8 factors (NF1, ODC1, POMP, PSMA6, PSMA7, PSMD3, PSMD6, and UBQLN2;) identified in the “Regulation of ornithine decarboxylase, and proteasome assembly” local cluster analysis (S7 Table). B. PPI subnetwork showing the interactions among the Proteasome cluster genes (purple nodes) and their direct connections from the larger PPI network in A. The node color code scheme is the same as in A. The lines between nodes are color coded to indicate the type of evidence supporting the protein-protein interaction. This subnetwork consists of 23 nodes, contains 58 edges, and has a PPI enrichment P value < 1.0E-16.