Figure S3.
Clonal expansion of Th17-like cluster and Treg cells in ZAC mice. (A) UMAP representation of two replicates from splenic Foxp3−CD4+ Tconv and Foxp3+CD4+ Treg cells from FIG WT or FIG ZAC mice (two mice each) by scRNA-seq. (B) Heatmap of top 5 highly expressed genes among differentially expressed genes from Foxp3− CD4+ Tconv cells (left) or Foxp3+ CD4+ Treg cells (right) in each clusters. (C) Pseudotime analysis of WT and ZAC Tconv cells based on gene expressions. Trajectory inferences shown as dotted arrows. (D and E) TCR clonotype tracking of ZAC Tconv (D) and Treg cells (E) in the spleen, dLN, and inflamed joint (ZAC mouse #2; see Table S1 for the indicated clonotypes). Cluster 6 (spleen) is also included in D. (F) Helios expression by Foxp3+ CD4+ Treg cells in RAG2−/− mice 10 wk after transfer of Foxp3−CD4+ T cells from BALB/c or ZAC mice.