Figure 3. Differentially expressed proteins and molecular pathways in PACNS.

Relative protein abundances for a subset of differentially regulated proteins in primary angiitis of the CNS (PACNS) vs noninflammatory control (NIC) are reported. Proteins representing the statistically significantly enriched pathways cell adhesion molecules and complement and coagulation cascades are included, as well as a subset of proteins manually curated to reflect findings of significant clinical interest, with functional classifiers informed by Database for Annotation, Visualization and Integrated Discovery and KEGG annotations. Heat map displays relative protein abundance across individual samples (PACNS n = 8, NIC n = 11, and reversible cerebral vasoconstriction [RCVS], n = 4), plotted as the z score of the normalized spectral counts. Differential expression was evaluated with DESeq2 and the t test (see Methods), with significance defined as having fold change >1.5 and Benjamini-Hochberg–adjusted p < 0.05 for both tests (*p < 0.05, **p ≤ 0.01, ***p ≤ 0.001). n.s. = not significant.