PMC:5369021 / 62076-62873 JSONTXT

{"project":"2_test","denotations":[{"id":"28347313-15372033-14906514","span":{"begin":793,"end":795},"obj":"15372033"}],"text":"The graph view on regulation\nThe modelling of regulatory networks as graphs, as used in all presented methods, is perhaps not the optimal representation for the underlying biological regulatory processes. A graph cannot easily account for important effects such as TF complex formation and temporal and spatial synchronization of activities. Furthermore, TF binding is affected by chromatin state and the impact of posttranslational modifications on transcriptional activity which are difficult to include in a graph view on regulation. The model’s dependence on the topological structure and the robustness to changes in the underlying network have not been evaluated or discussed in any of the presented methods even if these issues are known to have a severe influence in network analysis [83]."}