Fig. 7: Lineage tracing distinguishes developmental pathways for effector clusters. | Nature Communications

Fig. 7: Lineage tracing distinguishes developmental pathways for effector clusters.

From: Identification of distinct functional thymic programming of fetal and pediatric human γδ thymocytes via single-cell analysis

Fig. 7

A, top panel: UMAP plot of TRDV2 γδ thymocytes with Slingshot trajectories. This focused analysis identified 6 clusters with clusters 4,3 and 5 corresponding to Type 1, 3 and 2-like effector profiles respectively. A, bottom panel: UMAP plot of TRDV2 γδ thymocytes displaying pseudotime values across lineages. B Heatmap of smoothed scaled gene expression of selected genes differentially expressed across Type 1 lineage pathway (L1) compared to the other lineages (L2 and L3); note that the endpoints (effector clusters) themselves were not included in this analysis. C UMAP plot of γδ thymocytes with Slingshot trajectories and cells colored according to the indicated public TRDV2 chain they express. D Bar plots showing the abundance of Type 1 associated TRDV2 sequence (CACDTGGY(S)WDTRQMFF) (Left) and Type 2 associated TRDV2 sequence (CACD(Y)WGSSWDTRQMFF) (Right) across the distinct lineages (excluding the effector clusters) in the 6 fetal subjects. Data in D was analyzed by Ordinary one-way ANOVA for matched data with Holm-Sidak’s multiple comparisons test as Post Hoc test. Error bars in D correspond to the SEM. Source data are provided as a Source data file. See also Supplementary Fig. 10.

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