Fig. 7: TEs are differentially expressed in single cells in the diseased state. | Nature Communications

Fig. 7: TEs are differentially expressed in single cells in the diseased state.

From: Identifying transposable element expression dynamics and heterogeneity during development at the single-cell level with a processing pipeline scTE

Fig. 7

a UMAP plot of the single cells genes and TE expression, cells are colored by WT (wild-type) and AD (Alzheimer’s disease) state. b UMAP plot, as in (a), but clustered into groups (Leiden, resolution = 0.5). c Dot plot showing the differential expressed genes (top) and TEs (bottom) between disease-associated microglia (M2) and homeostatic microglia (M1/3) in AD mice. d UMAP plot, as in (a), but cells are colored by the expression of the indicated Apoe or the TE RLTR17. e UMAP plots of pancreatic islet cells. Cells are colored by cell types (left) or disease-state (right). Cell types were annotated according to the metadata from the original study, and matched the expression of known marker genes. f Dot plot showing marker gene expression (green) or TEs (red) differentially expressed between healthy and T2D alpha and beta cells (Benjamini–Hochberg corrected Wilcoxon rank-sum test, P < 0.01, and at least >2-fold change between groups). g Bar charts showing the expression of the indicated TEs from bulk RNA-seq data. Data are presented as mean values ± SD. P-value was from an unpaired Student’s t-test.

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