Figure 1

Features of the Cytokine Compendium and the cues – signals – responses paradigm. A. Cues – signals – responses paradigm for the design and execution of systems biology experiments for the analysis of signaling networks. Cells are exposed to perturbations (cues) and molecular signaling molecules and cellular responses are assayed, followed by application of multivariate statistical and machine learning data analysis techniques. B. Schematic representation of the apoptosis signaling network induced by TNF, EGF and insulin. On the diagram arrows indicate the type of interaction: activation (green), inhibition (red) and slow process (blue). The measured proteins (molecular signals) are highlighted in yellow. Red circles, triangles, and rectangles indicate kinase assay, antibody array, and western blotting measurements, respectively. The decomposition of the network into different pathways is shown by different colors (reproduced with modifications with permission from [5]). C. Distinction between one-to-one and many-to-one mapping functions between signals and responses. In the former case cellular response is measured for each time point of a particular treatment condition (cue), in the later – one cellular response is measured after several time points of the treatment condition.