Figure 4.

COVID-19 immune dysregulation. (a) A node (or object) on the map could be a gene, protein or chemical compound. Query genes from experimental data which intersect with pathway objects are denoted by thermometers. Thermometer 1 represents DEGs in response to treatment with vaccine, applying thresholds of 5 and −5 on log₂FC and FDR ≤ 0.05, respectively. Thermometer 2 represents DEGs in response to treatment with vaccine, applying thresholds of 2 and −2 on log₂FC and FDR ≤ 0.05, respectively. (b) Direct interactions network map between DEGs enriching COVID-19 immune dysregulation pathways. Connections between network objects on the map are referred to as links (or edges). A link identifies an interaction or a logical relation between two nodes. The type of interaction or relation is reflected by an appropriate symbol placed in the middle of the link. B = binding; IE = influence on expression; TR = transcription regulation; red arrows = inhibition; green arrows = activation; grey arrows = unspecified action; light violet text box = normal process; pink text box = pathological processes; white text box with blue outline = notes; starred network objects = groups or complex processes; red thermometers on pathway map = network object is upregulated by vaccine; blue thermometers on pathway map = network object is downregulated by vaccine. The length of red and blue bars in the thermometers represent log₂FC values (longer red bars represents larger upregulation of gene expression and longer blue bars represent larger downregulation of gene expression). Red circles on process network = network object is upregulated by vaccine; blue circles on process network = network object is downregulated by vaccine. Darker red circles indicate larger upregulation, darker red circles indicate larger downregulation.