Fig. 7. Module aggregate abundance patterns across the 16 disease or physiological states.

a Patterns of changes in transcript abundance at the aggregate and cohort levels. Each column on the heatmap corresponds to a “module aggregate”, numbered A1 to A38. Modules A9–A14 and A19–A24 were excluded as they each comprised only one module. Each row on the heatmap corresponds to one of the 16 datasets used to construct the module repertoire. A red spot on the heatmap indicates an increase in abundance of transcripts comprising a given module cluster for a given disease or physiologic state. A blue spot indicates a decrease in abundance of transcripts. No color indicates no change. Disease or physiological states were arranged based on the level of similarity in the patterns of aggregate activity, determined via hierarchical clustering. b Representation of the modules and genes constituting aggregate A28. The circle plot represents the six modules constituting aggregate 28, and the transcripts constituting each of the modules. Some genes on the Illumina BeadArrays can map to multiple probes, which explains the few instances where the same gene can be found in different modules. c Patterns of changes in transcript abundance at the module level and gene level for aggregate A28. The circle plots illustrate the changes at the gene level for this aggregate for 6/16 datasets. The position of the genes on each of these plots is the same as shown in panel B. Genes for which transcript abundance is changed are shown in red (increase) or in blue (decrease). d Patterns of changes in transcript abundance at the module and gene levels for aggregate A28 in subjects treated with IFN-α or IFN-β. The circle plots show changes in abundance of A28 transcripts in patients with hepatitis C infection treated with IFN-α [GSE11342³¹] or patients with MS treated with IFN-β [GSE26104³²] (HIV: human immunodeficiency virus, RSV: respiratory syncytial virus, TB: Tuberculosis, Staph: Staphylococcus aureus infection, SLE: systemic lupus erythematosus, MS: multiple sclerosis, JDM: juvenile dermatomyositis, COPD: chronic obstructive pulmonary disease, SoJIA: systemic onset juvenile idiopathic arthritis, IFNα: interferon alpha, IFNβ: interferon beta).