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Table 1 Comparing codon-based models

From: mRNA translation and protein synthesis: an analysis of different modelling methodologies and a new PBN based approach

  Petri net TASEP-based (PBN inc.) ODE
Assumption Deterministic waiting times Stochastic rate law Biochemical reaction rates
Exclusion enforced Yes Yes No
Update rule Parallel Random-sequential or parallel N.A.
Solution methods Analytical, simulations Analytical, simulations, or numericallyexact (PBN) Analytical, simulations, bifurcation analysis
Added complexity Partly allowed Allowed Allowed