Extended Data Fig. 1: tDC are distinct transcriptionally.

a CD135-enriched splenocytes from hCD2^EYFP mice were stained and sorted. Briefly, lineage containing CD3⁺/CD19⁺/NK1.1⁺/Ly6G⁺ cells were removed, and cells were gated using the strategy described in Fig. 1f. DC2 were further separated as EYFP⁺ and EYFP^- cells. Shown are cells before (upper panels) and after sort (bottom panels). b MA plots of bulk-RNAseq data comparing tDC vs DC2 and tDC vs pDC. Genes with 2-fold Log₂ change are shown in red (up) and blue (down) (see also Supplementary Table 4). c MA plot comparing tDC vs all other DC (pDC, DC2 and DC1). Genes with 2-fold Log₂ change are shown in red (up) and blue (down) (see also Supplementary Table 1). d scRNAseq of splenic DC subsets. Splenic DCs were sorted as shown in Fig. 1c and sequenced using droplet-based genomics. After filtering, 2,110 cells were analyzed. UMAP of clusters detected using Seurat’s pipeline (right). Heatmap of top DEG between clusters (left). e DC signature scores generated using CIBERSORTx in the bulk-RNAseq data from (a) was overlayed on UMAP from (d). f As in (e), but DC signature scores were overlayed on the KNetL Plot from Fig. 1d.