Reference UMAP
Cell type annotation.
Data Tools
Static and STR Kidney Organoid Single-Cell Viewer
Interactive UMAP, dot plot, and violin-style expression views for single-cell RNA-seq data from static and stirred-tank bioreactor kidney organoids.
Reference UMAP and gene expression
This viewer contains 6,045 cells and 30,785 features from day 36 kidney organoids, including Static (3,439 cells) and STR bioreactor (2,606 cells) conditions.
These samples were single-cell RNA-seq libraries prepared after shipment, freezing, and thawing. Epithelial marker expression may be reduced, while mesenchymal and stress-associated signals may be relatively increased; direct comparison with freshly processed datasets should therefore be made cautiously.
The viewer is intended primarily for exploring differences between Static and STR bioreactor conditions. Mesenchymal substructure, epithelial cell state, and stress or injury-associated signatures should be interpreted as exploratory and in the context of the study limitations described in the publication.
The web viewer reproduces the published analysis as closely as possible, but UMAP structure and clustering may differ slightly from the publication because of software- and version-dependent analysis behavior.
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Gene UMAP
Enter a gene symbol to color cells by expression.
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Dot plot
Rows are source cell type annotations; columns are Static and STR conditions. Dot size indicates percent of cells with nonzero expression, and color indicates mean log-normalized expression.
Combined violin
Expression distribution by source cell type, pooling Static and STR cells.
Source note
Dataset provenance
This exploratory viewer is associated with the study by Tekguc, Matsumoto et al., Engineering scalable vascularized kidney organoids for in vivo glomerular filtration with human endothelial integration, published in npj Biomedical Innovations in 2026. Please see the publication for experimental context, analysis details, and limitations.