Fig. 2
From: Single nucleus RNA-seq reveals the process from onset to chronic kidney disease in IgA nephropathy
Two blurred boundary mesenchymal stromal cell subsets revealed by snRNA-seq analysis. (A) Uniform Manifold Approximation and Projection (UMAP) plot of all cells that passed quality control, with basic cell type annotations. (B) Dot plot showing canonical marker genes used for cell identity annotation. Darker dot colors indicated higher mean expression, and larger dot sizes represented a greater fraction of cells within clusters expressing the marker genes. (C) The plot showed the top 5 most specific regulons for the MSC1 cell identity, as well as the expression distribution of the FOXC2(+) regulon. Cells with FOXC2(+) regulon expression above the mean plus two standard deviations were highlighted in green. (D) The plot showed the top 5 most specific regulons for the MSC2 cell identity, as well as the expression distribution of the PRRX1(+) regulon. Cells with PRRX1(+) regulon expression above the mean plus two standard deviations were highlighted in green. (E, F) The dot plots show the top 5 enriched WikiPathway terms (E) and Gene Ontology (GO) cellular component terms (F), based on increasing q-value, from the enrichment analysis of the top 500 marker genes for MSC1 and MSC2, respectively, compared to all other cell types. Redder dot colors indicate lower q-values, and larger dot sizes represent more enriched marker genes in the term. (G) The plot presented the results of the perturbation analysis. The x-axis represented the Augur score 1, which indicated the perturbation when comparing the normal eGFR IgAN group to the normal control group. The y-axis represented the Augur score 2, which indicated the perturbation when comparing the low eGFR IgAN group to the normal control group. Cell types with an Augur score 2 higher than Augur score 1 are considered to have experienced continuous perturbation as IgAN occurred and progressed.
