Fig. 3

Dynamic changes in the COVID-19 proteome and phosphoproteome during disease progression. A Heatmap of 56 proteins with significantly different abundance between COV (anytimepoint) and HC groups, as well as between any two time points. Clusters 1 and 2 are characterized with low abundance proteins on Day7 (Cluster 1) or Day 1(Cluster 2) whereas Clusters 3 and 4 feature high abundance proteinson Day 7 (Cluster 3) or Day 1 (Cluster 4). B Heatmap of 48 phosphosites with significantly different abundance between COV (any time point) and HC groups, as well as between any two time points. The three main clusters are characterized by low abundanceon Day 7 and Day 10 (Phospho_cluster 1), high abundance on Day 1 (Phospho_cluster 2), or high abundance on Day 7 (Phospho_cluster 3). In A and B, the significantly regulated proteins or phosphosites were selected by two layers of filters: 1) significantly up-or downregulated between the HC and the COV groups (Day 1, 7 or 10) based on the log2 difference > 1 and p < 0.05 (unpaired T-test), and 2) significantly up-or downregulated between any 2 days, based on the log2 difference > 1 and p < 0.05 (paired T-test for each patient). See Additional file 1: Fig. S2 for detailed explanation about the filters.