Table 1.

Patterns used and the slots to which they have been mapped. The patterns were actually represented using Java regular-expression syntax in the project, but they are shown here in a simplified syntax for readability. x refers to one or more characters, and * refers to zero or more characters. Patterns used within the GO biological-process ontology were preceded by a negating element to avoid capturing terms beginning with “regulation of”, “negative regulation of”, or “positive regulation of”. Patterns have been mapped to the slots such that a term matching a pattern may be related to the term that matches the subpattern x via the specific slot.

Patterns	Mapped Slot
x lumen*	is lumen of
x membrane*	is membrane of
x binding* x docking*	results in binding of
x catabolism* x disassembly*	results in breakdown of
x dephosphorylation*	results in dephosphorylation of
detection of x	results in detection of stimulus from
x development*	results in development of
x differentiation*	results in differentiation into
x inheritance*	results in distribution into daughter cells of
x division* x fission*	results in division of
x fermentation*	results in fermentation of
x assembly* x biosynthesis* x formation* x salvage*	results in formation of
x fusion*	results in fusion of
x maturation*	results in maturation into
x metabolism*	results in metabolism of
x modification*	results in modification of
negative regulation of x	results in negative regulation of
x oxidation*	results in oxidation of
x phosphorylation*	results in phosphorylation of
positive regulation of x	results in positive regulation of
x proliferation*	results in proliferation of
x reduction*	results in reduction of
regulation of x	results in regulation of
x secretion*	results in secretion of
x transport*	results in transport of