Part II Genetic Circuit

Under Matlab Simbiology Toolbox, we demonstrate all the reactions listed below.

SimBiology Reaction Array

  Index:    Reaction:
  1         DNA.lacO_hAID_lexA + Pro.LacI <-> DNA.[lacO:LacI]
  2         DNA.lacO_hAID_lexA -> mRNA.lacO_hAID_lexA + DNA.lacO_hAID_lexA
  3         mRNA.lacO_hAID_lexA -> null
  4         mRNA.lacO_hAID_lexA -> Pro.hAID_LexA
  5         Pro.hAID_LexA + DNA.DeGal4_lexO <-> DNA.[hAID_LexA:DeGal4_lexO]
  6         Pro.hAID_LexA -> null
  7         DNA.Gal4_LexO -> mRNA.Gal4_LexO + DNA.Gal4_LexO
  8         mRNA.Gal4_LexO -> Pro.Gal4
  9         Pro.Gal4 + DNA.UAS_his_lacZ_lacI -> DNA.[Gal4:UAS_his_lacZ_lacI]
  10        DNA.[Gal4:UAS_his_lacZ_lacI] -> mRNA.his_lacZ_LacI
  11        mRNA.his_lacZ_LacI -> Pro.LacI + Pro.His + Pro.LacZ
  12        mRNA.Gal4_LexO -> null
  13        mRNA.his_lacZ_LacI -> null
  14        Pro.LacI -> null
  15        Pro.Gal4 -> null
  16        DNA.[hAID_LexA:Gal4_lexO] -> Pro.hAID_LexA + DNA.Gal4_LexO
  17        DNA.[hAID_LexA:DeGal4_lexO] -> DNA.[hAID_LexA:Gal4_lexO]
  18        Pro.His -> null
  19        Pro.LacZ -> null

The diagram of the network is shown as well.

To simplify the model, we combine the transcription and replication to one process of DNA expression. Also introduce the Hill-equation to demonstrate the function of repression and activation of the transcriptional factors. Other technical procedure introduced as well, we simplify the model further. The simplified model is as below.