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. Author manuscript; available in PMC: 2020 Jun 26.
Published in final edited form as: Nat Med. 2019 Oct 7;25(10):1576–1588. doi: 10.1038/s41591-019-0590-4

Figure 5. Transcriptional dysregulation of CD8+ T cells and macrophages associated with cerebrovascular events.

Figure 5.

Volcano plots of the top 5000 Differentially Expressed Genes (DEGs) upregulated in SYM (red) and ASYM (blue) patients in (a) CD8+ T cells (n=1,747 cells) and (b) macrophages (n=747 cells)DEGs were statistically derived using a two-sided Welch’s T- Test combined with Benjamini-Hochberg correction. Pathway analysis of the top 5000 DEGs of (c) CD8+ T cells and (d) macrophages in plaques upregulated in SYM and ASYM patients. The combined score corresponds to the P value (two-sided Fisher’s exact test) multiplied by the Z-score of the deviation from the expected rank, and q values were determined using the Benjamini-Hochberg multiple hypothesis correction. Heatmap of the top 100 variable genes hierarchically clustered in (e) CD8+ T cells and (f) macrophages across SYM and ASYM patients. Rows: z-scored gene expression values; columns: individual cells. Above the heatmap, the top category shows identified cell clusters, the middle category indicates the cluster’s enrichment in SYM/ ASYM patients (p values determined by the two-sided binomial proportions test), and the bottom category indicates the cell’s origin from SYM or ASYM subjects. Boxes (right) list key genes found in clusters. (g) Canonical signaling pathway analysis of the top 5000 DEGs in the indicated cell clusters from plaques from SYM or ASYM patients.