Fig. 2: Comparison of Transgel organoid to traditional organoids using single-cell RNA sequencing. | Nature Communications

Fig. 2: Comparison of Transgel organoid to traditional organoids using single-cell RNA sequencing.

From: Accessible homeostatic gastric organoids reveal secondary cell type-specific host-pathogen interactions in Helicobacter pylori infections

Fig. 2

a Experimental overview. Organoids or Transgel organoids were grown as indicated for a total of 7 days and single-cell RNA sequencing was performed using a multiplexing strategy (see “methods” for details). b Brightfield images (Extended field of depth) of organoids and Transgels in the conditions used. Representative images from three independent experiments. Scale bars, 100 µm (c) UMAP plot of all cells with annotations and relative gene expression values of marker genes (right). Marker genes used for annotations are provided in Source Data file. d UMAP plots with subset of cells corresponding to indicated conditions highlighted. e Cellular composition of the different model systems. Source data are provided as a Source Data file. c–e Colors represent annotated cell types and are consistent throughout.

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