Fig. 2: Proteomics analysis recapitulates transcriptomics and human COVID-19 patient data.
From: Temporal omics analysis in Syrian hamsters unravel cellular effector responses to moderate COVID-19
a Temporal evolution of gene ontology/biological process terms connected with immune system response in lung tissue (left part) and in serum (right part), for the indicated time points compared to samples from uninfected control animals. Enriched terms were filtered for terms mentioning immune, interferon, neutrophil, T cell and B cell and attained false discovery rates (fdr) below 0.2 at least at one-day post infection (dpi) in lungs or serum. The redundancy of terms was then reduced using REVIGO. Size of dots correspond to the inverse of the false discovery rate, color corresponds to median log2(fold change (FC)) of proteins, contributing to the term. b Expression values for differentially regulated proteins in hamster serum (control versus infected at 3 dpi, p < 0.01) and lung (control vs. infected at 5 dpi, p < 0.01) that correlate with disease severity in human plasma. Controls from different days are plotted together. Lung sample group sizes: control: n = 12, 2 dpi: n = 6, 3 dpi: n = 5, 5 dpi: n = 6, 14 dpi: n = 5. Serum sample group sizes: control: n = 6, 2 dpi: n = 6, 3 dpi: n = 4, 5 dpi: n = 7, 14 dpi: n = 6. All non-missing values are shown. c Expression values for the differentially expressed (control vs. infected at 5 dpi, p < 0.01) proteins Lgals3 and Lgals3bp (only detected in lung samples). Individual data points are shown in shades of gray. Lung sample group sizes: control: n = 12, 2 dpi: n = 6, 3 dpi: n = 5, 5 dpi: n = 6, 14 dpi: n = 5. b, c Box plots, the middle line in the boxplot displays the median, the box indicates the first and third quartile, whiskers the 1.5 interquartile range (IQR). arb.u.: arbitrary units.
