Additional file 4.

Example of results for the HepG2 real data application. A. Previous knowledge network used for this analysis. B. Example of a trained model obtained in one of the optimization round, with a subset of the simulation results obtained with this network (C). For the networks the color codes are as follows: nodes: green=stimulated, red=inhibited, blue=measured, blue with red stroke=measured and inhibited, dashed stroke=compressed; edges (in the trained model in panel B): green=selected at time 1, blue=selected at time 2, grey=not selected in the trained model. In panel C, black continuous lines=data, dashed blue lines=simulation results obtained with the model in B. The background color reflects the goodness of fit of the model to data: green= the chosen Boolean value is closer to the data than the opposite Boolean value (the darker, the closer), red= the chosen Boolean value is further from the data than the opposite Boolean value (the darker, the further).

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Terfve et al. BMC Systems Biology 2012 6:133   doi:10.1186/1752-0509-6-133