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. Author manuscript; available in PMC: 2024 Jul 25.
Published in final edited form as: Sci Transl Med. 2024 Jul 3;16(754):eadi6887. doi: 10.1126/scitranslmed.adi6887

Figure 2. Transcriptomics identify a myeloid cell-rich microenvironment in SARS-CoV-2 infected lung tissue.

Figure 2.

(A)Volcano plot of differential mRNA expression in BAL cells from uninfected “normal” (n=5) and COVID-19 infected (n=8) patients. Significant gene expression differences are identified in blue (down-regulated in COVID-19) or red (up-regulated in COVID-19). (B) Heatmap depicting differentially expressed genes in BAL cells from normal uninfected (n=5) and infected patients (n=8). (C) Plot of up- or down-regulated Hallmark pathways in BAL from infected (n=8) versus uninfected patients (n=5) graphed according to normalized expression score (NES) and log adj.p. (D) Volcano plot of differential mRNA expression in lung tissue from normal (n=5) and COVID-19 (n=12) patients. (E) Heatmap depicting differentially expressed genes in lung tissue from normal (n=5) and COVID-19 (n=12) patients. (F) Plot of differentially expressed hallmark pathways in lung tissue from normal and COVID-19 patients graphed according to NES and Log adj. P. (G) Graphs of SFTPC, C1R, SFTPB, and CD163 transcripts in COVID-19 (n=12) versus normal (n=5) patient lung tissue (mean ± SEM), (H-I) Box plots of mean ± SEM cell type deconvolution of (H) BAL from normal (n=5) and COVID-19 (n=8) patients and (I) lung tissue from normal (n=5) and COVID-19 (n=12) patients. p values were determined by limma-vroom.