Figure 1.

Overview of DPEA method. (a) In this hypothetical protein interaction dataset, domains are represented as colored squares; proteins are represented as collections of one or more domains joined together; and protein interactions are shown as black double arrows. The protein interactions are known, the domain content of each protein is known, and domain interactions are unknown. Any pair of domains that co-occur in a pair of interacting proteins is considered a potentially interacting domain pair. (b) The frequency of proteins with domain i interacting with proteins with domain j, S_ij is computed. (c) Using S_ij as an initial guess, the propensity, θ_ij, of each kind of potential domain interaction is estimated by EM. (d) The evidence, E_ij, for each inferred domain interaction is then assessed by calculating the change in likelihood when a given type of domain interaction is excluded.