Differential expression

2021-06-10: Initial data release
Differentially expressed genes and pathways upon pathogen stimulation.
a. Number of DE genes per cell type upon 3h (light colors) or 24h (dark colors) stimulation with C. Albicans (CA, green), M. Tuberculosis (MTB, blue) or P. Aeruginosa (PA, orange). b. Bar plot showing the overlap of DE genes across cell types. The first bar, depicting the cell type-specific DE genes, is colored based on the cell type in which the DE gene is found. . Bar plot showing the overlap of DE genes across pathogen‒timepoint combinations (3h vs 24h stimulation with CA, PA or MTB). rs are colored based on the length of stimulation. d. Boxplots (showing median, 25th and 75th percentile, and 1.5 × the interquartile range) representing the module score of the antigen-processing cross-presentation pathway across all individuals per cell type and per 24 hours pathogen-stimulated condition. Each dot shows the average module score per individual. e. Heatmap showing the immune-related DE genes in monocytes (V3 chemistry is shown). The DE genes in four immune pathways that are highlighted on the top are the main pathways involved in pathogen recognition and its downstream signaling. C-type lectin and toll-like receptors show more general activation upon pathogen stimulation, whereas interleukin-1 and interferon signaling show a more specific expression pattern with timepoint (3h stimulation) or stimulation (CA), respectively.