Figure 3
Quantitative proteomics time course analysis of early reperfusion after acute infarction in the ischemic myocardium. Quantitative proteomics screening approach results were analyzed using the Systems Biology Triangle (SBT) model to detect coordinated protein changes in functional categories over time. Functional categories significantly altered (False Discovery Rate, FDR < 0.05) at least one time point were classified into four clusters (a–d) Cluster a, increasing after 120 min with sustained upregulation for 7 days after ischemia onset; Cluster b, decreasing after 120 min and recovering to baseline values at day 7, except for glycolysis and kinase-binding proteins. Cluster c, increasing at days 4 and 7, with maximum change at day 7; and Cluster d, decreasing over time, with a tendency to reach minimum values at day 7. Protein values (Zq) and functional category values (Zc) are reported as log2 fold changes with respect to baseline, in units of standard deviation. The complete set of proteins changing in each category is listed in Supplementary Tables S1–S4. Panel (e) displays the cumulative distributions of Zq from proteins belonging to a set of representative categories from clusters c and d, showing the high coordination of protein responses. (f) Schematic chart of changes in water content and protein clusters. The proteomics results presented here are representative of three technical replicate experiments using five animal sample pools.
