Signaling and protein-protein interaction (PPI) networks differ from metabolic processes in many aspects. One can not relay there on mass conservation constraint. At the same time Boolean type of modeling gives effective modeling tool limiting the states just by active (=1) or inactive (=0) states. Boolean modeling can be combined also with kinetic modeling technologies whenever sufficient amount of details is available.

PPI networks of actin polymerisation in humans and signaling networks in plants are addressed by our group so far.

We use GinSim, CellNetAnalyzer and Cellcollective software tools.