Characterization of liver infiltrated donor CD4 T cells using scRNA-seq. Allo-HSCT was performed as described in Figure 1. Three weeks after HSCT, livers were harvested from recipients for T-cell enrichment. (A) Uniform manifold approximation and projection for dimension reduction (UMAP) analysis of single-cell transcriptome from liver infiltrated WT and Id3-cKO donor CD4⁺ T cells identified 6 clusters: 1A, 1B, 3A, 3B, 6, and 7. (B) Expression of effector molecules in WT and Id3-cKO CD4⁺ T cells in clusters 1A, 3A, and 3B. The sizes of balls represent percentage of cells expressing the molecule in that cluster, whereas the shades of red represent the average level of the molecule in the cluster. (C) Expression of inhibitory molecules in WT and Id3-cKO CD4⁺ T cells in clusters 1A, 3A, and 3B. (D) Characterization of WT cluster 1A using ingenuity pathway analysis of DEGs in 1A compared with the average transcriptome of other clusters. (E) Ingenuity pathway analysis characterization of Id3-cKO cluster 1A relative to WT cluster 1A.