Fig. 5

Gene set enrichment analysis (GSEA) based on Hallmark pathways identifies common and distinct signaling pathways in bacterial and viral infection of explanted human lung tissue. mRNA expression data were extracted from the bulk RNAseq data set used for Fig. 3, and a GSEA was performed using the prerank gene list from Deseq2 analysis against the Hallmark gene set collection. Significantly enriched or depleted Hallmark pathways are indicated by the triangles as detailed in the legend next to the figure. A GSEA based on Gene Ontology Biological Process (GO:BP) is shown in Figure S6