Fig. 2

Changes in biological functions based on differentially expressed proteins in the APP-KI mouse brain. A–C Volcano plots of the identified proteins in the brains of 2-, 5-, and 12-month-old mice. Brain homogenates (from 3–5 biological replicates) were subjected to SWATH-MS-based quantitative proteomic analysis. P-values estimated by Welch’s t-test were plotted against fold change (APP-KI/WT) of protein expression for all identified proteins in the brain lysates of age-matched mice. The horizontal line in each graph represents the significance level (P < 0.01). The vertical line in each graph represents the fold change (1). D Venn diagrams comparing differentially expressed proteins in the brains of 2-, 5-, and 12-month-old APP-KI mice. E Venn diagrams comparing the top 20 enriched biological processes identified by Metascape in the brains of 2-, 5-, and 12-month-old APP-KI mice. F, G Top 5 enriched biological processes (F) and changes in the associated protein levels (G) in 5- and 12-month-old APP-KI mice. Box-plot elements: center line, median; box limits, upper and lower quartiles; whiskers, minimum and maximum values. (H, I) Age-dependent changes in protein expression associated with neutrophil degranulation (H) and cellular homeostasis (I) in the brain of APP-KI mice. Violin plot elements: center line, median; upper and lower lines, upper and lower quartiles