Fig. 2: Analysis of degree distribution and robustness in causal protein networks.

a The figure summarizes key statistics for both the full causal protein network (CPN; “all”) and the subset restricted to edges among the 185 causal protein network regulators with at least 10 members (“A-only”). Reported metrics include the numbers of nodes and edges, as well as counts of 2- and 3-node feedback and feedforward loops. b The figure displays the relative sizes of the largest connected component after sequentially removing the top k = 1 to 10 hub proteins. c Out-degree distributions for network regulators are presented for the complete network (blue) and (d) the A-only network (orange), with annotations emphasizing the most highly connected network regulators. e The corresponding in-degree distribution is shown for the network targets for the complete network (blue) and (f) A-only network (orange). g Robustness analysis receiver operating characteristic (ROC) area under the curve (AUC) for sub-sampled networks compared to networks using all 5376 samples. h Precision-Recall curves for sub-sampled networks at a 1% FDR threshold are compared to networks using all samples. Similar curves at 5% and 10% FDR thresholds are presented in Supplementary Fig. S4.