HCT intersection: IAV vs pathway node (ChIP-Seq) - full

This network computes overlap between IAV high confidence transcriptional targets (HCTs) and HCTs of pathway nodes derived from SPP ChIP-Seq consensomes.
METHODS
HCTs are defined as human genes in the 95th percentile of either 1) a viral infection transcriptomic consensome or 2) a pathway node (or node family) consensome.
For an introduction to consensome analysis please refer to Ochsner et al. (2019) Nat Sci Data 6, 252.
We computed four viral infection HCT gene sets (SARS-CoV-1, SARS-CoV-2, MERS and IAV) against HCTs derived from ChIP-Seq consensomes for a range of pathway nodes. Overlaps between virus infection and node HCTs were assigned an FDR-corrected q-value, which corresponds to the probability that the degree of overlap is due to a random event. Node HCT overlaps are ranked in ascending order of Q-VALUE and organized into percentiles, such that the 99th percentile contains the nodes with the lowest consensome q-value. The higher the percentile, the greater the confidence for the overlap between the node HCTs and those of the viral infection.
INTERPRETATION
Cellular signaling pathway nodes in this network are organized according to SPP’s signaling pathway node-centric classification, which classifies nodes as receptors, enzymes, transcription factors, ion channels or co-nodes (Ochsner et al., 2019). Nodes (colored circles) are colored according to the category to which they belong: orange = receptors; blue = enzymes; green = transcription factors; mustard = ion channels; grey = co-nodes. Nodes are grouped by classes (white circles) specific to each category. Node circle sizes are proportional to the overlap q-value: the larger the node circle, the lower the q-value and the greater the confidence of the overlap between HCTs for this node and the viral infection. Clicking a node circle will pull up a pane showing details on the data point, including the number of genes in the intersection of its HCTs and those of the viral infection.
This network contains the full HCT node overlap network; however, for effective visualization, the custom sample displays only nodes with a percentile value equal to or greater than 95% (i.e. top 5%). The network for the 95th percentile subset is available HERE.