Mathematical modeling of the molecular switch of TNFR1-mediated signaling pathways applying Petri net formalism and in silico knockout analysis
Fig 10
In silico knockout submatrix of the PN in Fig 2.
The rows list the proteins, which were knocked out, and the columns give the protein complexes in the network, which could be affected by the knockout. A red (gray) entry indicates that the respective complex was (was not) affected. We performed a single knockout analysis for twenty proteins and displayed the effect for a part of 21 pathway entities. The last two rows represent multiple knockouts and display the effect of SMAC mimetic, i.e., the knockout of XIAP and cIAP, and the impairment of the translation of upregulated genes by cycloheximide, i.e., the knockout of IκB, A20, XIAP, cFLIPL, and BCL-2.