Fig 4.
A New mathematical model architecture based on stochastic receptor and gene binding and second order nonlinear IKK activity. B Model simulations of NF-κB nuclear localization at the experimentally measured TNF-α concentration range. The low dose (0.01 ng/ml) stimulated cells show clear separation between active and non active cells, similar to those observed in experiments. The response times and the peak intensities agree well with the data at all doses. The model faithfully reproduces: C The fraction of activate cells, D Nuclear NF-κB intensities and, E Response times vs. TNF-α concentration. Error bars in are standard deviation from median and show the distribution of simulated traces. F Simulations of early (top), intermediate (middle) and late (bottom) genes under various doses of TNF-α. Simulations were done at different transcript degradation times (Tdeg).