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. 2019 May 14;8:e46149. doi: 10.7554/eLife.46149

Figure 3. Heatmap representing the transcript overlap between WGCNA modules and the reference modules.

Reference modules are the blood transcriptional modules defined by Li et al. (2014). These modules are shown in rows and are annotated within a higher functional group. Only WGCNA modules that showed a significant enrichment (hypergeometric test adjusted p-value<0.05) in any of the reference modules were included and shown in columns (hypergeometric test adjusted p-value<0.05). The legends on the figure report the strength of the p-value as a gradient of green. The colours at the top of the columnsindicate the tissue being analysed, whereas rows are colour-coded to indicate their higher annotation, as indicated in the key.

Figure 3.

Figure 3—figure supplement 1. Weighted gene co-expression network analysis of module–trait relationships.

Figure 3—figure supplement 1.

Modules extracted by co-expression analyses in the injected muscle (A), draining lymph nodes (B), and blood (C) datasets are in rows labelled with a colour for each treatment and an identificaton number. The number of genes contained in the given module is also listed after the identification numbers. The heatmaps are colour coded by the Pearson correlation coefficient between the given module eigengene and the trait (r > 0.3 in blue and r < −0.3 in red, *p<0.01, **p<0.001, ***p<0.0001; see legend above heatmaps). (D) Consensus modules (square-shaped nodes) across the different tissue datasets are represented in a network diagram. Nodes are scaled to the module size and coloured by their strongest associated trait, with Engerix B in light blue, Agrippal in purple, Fluad in red, Pentavac SD in orange and LPS in dark blue. The thickness of the lines is scaled to the number of genes shared between the connected modules. Modules are connected if they share more than four genes, and connected modules that are not associated with a trait are not shown (absolute correlation coefficient r < 0.35).
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