PS: I have single time point gene expression data for around half of the gene in the signaling network.
By specifying a threshold per gene for "presence" or "absence". As the stae of a knot may be influenced by several activators and inhinitors, you will need to define some appropriate integration functions for the incoming links to the knots.
You may check these papers:
A Tutorial on Analysis and Simulation of Boolean Gene Regulatory Network Models
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808677/
Boolean Modeling of Genetic Regulatory Networks
http://users.phys.psu.edu/~ralbert/pdf/springer_final.pdf
Boolean Network Model Predicts Knockout Mutant Phenotypes of Fission Yeast
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0071786
Modeling mechanistic biological networks: An advanced Boolean approach
http://bioinformatics.oxfordjournals.org/content/28/4/557.long
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