Table 5.

Rules for Multiple Regulated Systems

Regulator1	Regulator2	Conformation of regulator1	Conformation of regulator2	Predicted discrete state	Experimental discrete state	Consistency
Any two activators
activator	activator	activating	activating	on	on	direct
activator	activator	not activating	not activating	off	on	incongruent
activator	activator	not activating	activating	on	on	activator rule
activator	activator	not activating	activating	on	off	incongruent
activator	activator	not activating	not activating	off	off	direct
One activator is CRP
Crp	activator	not activating	activating	off	off	crp rule
Crp	activator	not activating	activating	off	on	incongruent
Crp	activator	activating	activating	on	on	direct
Crp	activator	not activating	not activating	off	on	incongruent
Repressors
repressor	repressor	repressing	not repressing	off	on	incongruent
repressor	repressor	repressing	repressing	off	off	direct
repressor	repressor	not repressing	repressing	off	off	repressor rule
Dual groups
activator	repressor	activating	repressing	off	on	incongruent
activator	repressor	activating	not repressing	on	on	direct
activator	repressor	not activating	not repressing	???	on	basal level
activator	repressor	activating	repressing	off	off	repressor rule
activator	repressor	not activating	repressing	off	off	direct

Example of multiple interaction rules extracted from literature for positive, negative, and dual regulated. The first two columns describe the regulator function. Columns 3 and 4 represent the state of the regulator. Column 5 describes the predicted state. Column 6 gives the microarray discrete state, and column 7 represents the consistency between columns 5 (predicted discrete state) and 6 (experimental discrete state).

Regulatory Network of Escherichia coli: Consistency Between Literature Knowledge and Microarray Profiles