Examples of the six rule types. The drawings represent a portion of the GO hierarchy where each gray oval is a GO term. The top open oval is the GO term molecular function that serves to distinguish functions from cellular component or biological process. In every example, except “single protein”, there are five GOAPs having similarity to a particular domain. The numbers next to the term ovals indicate the number of times the term is the deepest function associated with a GOAP. In “consensus leaf” and “consensus ancestor”, one of the proteins has additional GO function terms that our method does not associate with the domain. In “near consensus leaf” and “near consensus ancestor”, a spurious protein has similarity to the domain, but the GOAP and its GO function terms were not used in generating the rule.