The Beacon Calculus: A formal method for the flexible and concise modelling of biological systems
Fig 4
Extensions to the DNA replication model.
The DNA replication model in Fig 1b is modified to include either (a) cooperative origin firing or (b) fork progression through a replication fork barrier. All changes to the model in Fig 1b are highlighted in blue. (c) Results from Fig 1b compared with the simulated models from (a) and (b) where each curve is the average over 500 simulations. Shading shows the standard error of the mean. The system line has been truncated for clarity (see S1 Text). The stall rate sr was chosen to be on average ten times slower than it takes a fork to move 1 kb.