Fig. 4: Bayesian causal networks and key drivers.
From: Multiscale causal networks identify VGF as a key regulator of Alzheimer’s disease
a Full Bayesian network and an APOE subnetwork. Background visualization of the multiscale AD network described in the main text using an edge-weighted spring embedded layout. The red nodes are proteins and the blue nodes genes. Key driver (KD) genes and proteins are highlighted in yellow. Foreground multiscale subnetwork comprised of genes within a path length of 3 to APOE. Node names and properties are defined in the panel legend. b Density plots of the distribution of pLI scores for genes and proteins by the number of times they appear as global KDs across the three discovery and four replication networks. The yellow dashed line represents the median pLI score for that category. c Distribution of the number of times genes and proteins across all three discovery networks were identified as KDs across all DE signatures. The x- and y-axis depict the different KDs appearing in at least two networks and the number of times they are identified as KDs for DE signatures across all three networks. The colors of the bars are indicative of the network of origin of the KDs. d KD of DE signatures in the multiscale network, as described for (b). The color of the bars is indicative of KDs presence only in the gene expression, protein expression, or in both.
