Figure 3. Quantitative description of the network, complex, and enzyme–PTM databases.

• A–C
  Networks by interaction types and the network datasets within the PPI network. (A) Number of nodes and interactions. The light dots represent the shared nodes and edges (in more than one resource), while the dark ones show their total numbers. (B) Causality: number of connections by direction and effect sign. (C) Coverage of the networks on various groups of proteins. Dots show the percentage of proteins covered by network resources for the following groups: cancer driver genes from COSMIC and IntOGen, kinases from kinase.com, phosphatases from Phosphatome.net, receptors from the Human Plasma Membrane Receptome (HPMR) and transcription factors from the TF census. Gray bars show the number of proteins in the networks. The information for individual resources is in Figs EV1 and EV2, Appendix Fig S1.
• D–G
  On each panel, the bottom rows represent the combined complex and enzyme–PTM databases contained in OmniPath (D, E). Number of complexes (D) and enzyme–PTM (E) interactions by resource. (F) Enzyme–PTM relationships by PTM type. (G) Enzyme–PTM interactions by their target. Light, medium, and dark dots represent the number of enzyme–PTM relationships targeting the enzyme itself, another protein within the same molecular complex or an independent protein, respectively.