Extended Data Fig. 3: Carotid plaque MP subcellular genes and related biological processes.
a) Dot plots of MP2, MP3, MP5 and MP8 show top-ranked biological processes according to GO. Gene Ratios (x-axis) are the relative number of subcluster genes in relation to the total gene count in each GO category. Dot size indicates the actual number of subcluster genes in each GO category. GO enrichment −log10 P values were calculated with Fisher exact test. Cluster genes indicate the number of subcluster genes overlapping with the GO category. b) Volcano plots (left) of MP1 subcluster DEGs using all other MP subclusters used as background. Cell type–specific gene enrichment was calculated using Wilcoxon Rank-Sum test (log2-fold >0.3, Bonferroni-adjusted P < 0.005). Dot plots (right) show top-ranked biological processes according to GO. Gene Ratios (x-axis) are the relative number of subcluster genes in relation to the total gene count in each GO category. Dot size indicates the actual number of subcluster genes in each GO category. GO enrichment −log10 P values were calculated with Fisher exact test. Cluster genes indicate the number of subcluster genes overlapping with the GO category. c) Volcano plots (left) of MP7 subcluster DEGs using all other MP subclusters used as background. Cell type–specific gene enrichment was calculated using Wilcoxon Rank-Sum test (log2-fold >0.3, Bonferroni-adjusted P < 0.005). Dot plots (right) show top-ranked biological processes according to GO. Gene Ratios (x-axis) are the relative number of subcluster genes in relation to the total gene count in each GO category. Dot size indicates the actual number of subcluster genes in each GO category. GO enrichment −log10 P values were calculated with Fisher exact test. Cluster genes indicate the number of subcluster genes overlapping with the GO category.
