Fig. 4

Changes in biological functions based on differentially expressed proteins in the brain capillaries of APP-KI mice. A–C Volcano plots of the identified proteins in the brain capillaries of 2-, 5-, and 12-month-old mice. Isolated brain capillaries (from 3–5 biological replicates) were subjected to SWATH-MS-based quantitative proteomic analysis. P-values estimated using Welch’s t-test were plotted against the fold change (APP-KI/WT) of protein expression for all identified proteins in the isolated brain capillaries from age-matched mice. The horizontal line in each graph represents the level of significance (P < 0.01). The vertical line in each graph represents the fold change (1). D Venn diagrams comparing differentially expressed proteins in the isolated brain capillaries of 2-, 5-, and 12-month-old APP-KI mice. E Venn diagrams comparing differentially expressed proteins between isolated brain capillaries and brains of age-matched APP-KI mice. F Venn diagrams comparing the top 20 enriched biological processes identified using Metascape in the isolated brain capillaries of 2-, 5-, and 12-month-old APP-KI mice. G, H Top 5 enriched biological pathways and processes (G) and changes in the associated protein levels (H) in 2-, 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