Fig. 3: Proteins display early severity-dependent trajectories.

a Line plots of proteins with a different temporal trajectory in patients who developed critical versus non-critical illness. Example proteins were identified using significantly enriched pathways or pertinent biological processes of respiratory failure. Estimated marginal means and their confidence intervals were derived from the linear mixed models using the emmeans::emmeans function. The dots represent estimates, and the error bars indicate the confidence intervals at each time point. Protein abundance levels were Log2 transformed. n = 480 samples from 318 individuals. b Dotplot of enriched pathways involved in proteins with a different temporal trajectory in patients with a non-critical and critical illness. The 30 most significant clusters are represented by the most significant pathway term of each cluster. Dot size indicates the number of proteins, colours represent fold enrichment. Terms are ordered by the significance level of the representative pathway term. BIO = Biocarta, KEGG = Kyoto Encyclopedia of Genes and Genomes, PID = Pathway Interaction Database, RCT = Reactome, SIG = Signalling Gateway, WP = Wikipathways. c Network plot of the eight most significantly enriched representative pathway terms of the enrichment analysis shown in (b). Proteins are connected with each of the pathway term they are involved in. KEGG = Kyoto Encyclopedia of Genes and Genomes, RCT = Reactome, WP = Wikipathways. Source data are provided in the supplementary Source Data file. Full protein names, estimates and p values are provided in the Supplementary data 4 (a) and 11 (b).