Figure 2.
Correlation of Co-regulated Proteins Identifies Cellular Signaling Pathways Modulated upon Infection
(A) Correlation map of all detected phosphoproteins indicating Euclidean distance between proteins. To determine correlation, Z scores of phosphopeptides and total protein levels were added and all of the peptide values for 1 protein collapsed into an average Z score. Correlation clustering was performed by Euclidean distance on combined Z scores for all conditions. The red dashed line indicates the main clusters found and identified.
(B) Reactome pathway enrichment of proteins found in cluster I in (A). Shown are the number of proteins identified in the respective cluster versus the statistical significance of enrichment. The circles are increasingly sized according to the number of proteins found in the pathway.
(C) Scatterplot showing FCs of phosphopeptides compared to FCs of total protein levels. The yellow oval indicates peptides for which phosphorylation is not driven by changes in protein abundance.
(D) Reactome pathways found enriched in cluster II in (A); analyses and presentation as in (B).
(E) Scatterplot showing correlation between FCs of phosphopeptides compared to FCs of total proteins levels. Two subsets of phosphopeptides were detected: one was mainly regulated by differential modification (indicated in yellow), the other by changes in protein abundance.
(F) STRING network analysis of proteins decreased in total protein levels (Figure 1C). The inserts indicate pathways found in the network.