nFuzzyStates 6

starttime 0.0
endtime 28400.0
#endtime 43400.0
ntimesteps 72000
saveInterval 100

PopulationSize 1
nGenerations 1
mutationRate 0.05

Plot Shh 
Plot Gli1
#Plot Gli2
Plot Ptc1
Plot Smo
#Plot TransEvent
#Plot NmycP
Plot Tumor

Node Shh 0.1  0.001 0.1
Node NmycP 
Node Ptc1 0.5
Node Smo 
Node Gli1 

Node Gli2  
Node pSwitch 1	# 0 = no feedback, 1 = feedback
Node Tumor 0 100.0
Node TransEvent 1.0

Reaction ShhOn 0.001
  pro Shh
  time 1440 144000
#Reaction ShhOff 0.001
#  sub Shh
#  time 2160 5760 14400 28400

Reaction PTC1_baseline 0.00005
  pro Ptc1 
 
Reaction PTC1 0.0005 
  pro Ptc1 
  act Gli1 
  act pSwitch 

Reaction PTC1_nofb 0.0020 
  pro Ptc1 
  inh Shh 

Reaction Ptc1Decay 0.0010 
  sub Ptc1 

Reaction SmoActivation 0.0020 
  pro Smo  
  inh Ptc1 5 2 1 1 0 0

Reaction SmoInactivation 0.0020 #0.0005 
  sub Smo 

Reaction GLI2 0.0020 
  pro Gli2  
  act Smo 0 0 1 1 2 5  

Reaction Gli2Decay 0.0010 
  sub Gli2  

Reaction GLI1 0.002 
  pro Gli1 
  act Gli2 

Reaction Gli1Decay 0.0010 
  sub Gli1  

Reaction NmycPSynthesis 0.0002 
  pro NmycP 
  act Shh 0 0 2 3 4 5 

Reaction NmycP_decay 0.0002 
  sub NmycP   
  inh Shh 5 4 3 2 0 0

#Reaction TransEventOn 0.0004
#  pro TransEvent
#  act Shh 0 0 0 3 4 5 
#Reaction TransEventOff 0.0004
#  sub TransEvent
#  inh Shh 5 4 3 0 0 0 

Reaction TumorGrowth1 2.0E-3
  act Gli1 0 0 0 1 3 3 
  act NmycP  
  act TransEvent
  pro Tumor  

Reaction TumorApoptosis 2.0E-3
  sub Tumor