A unified spatial transcriptome profiling of ten mouse organs

Here, we present a unified spatial transcriptomic dataset generated using the Stereo-seq platform, covering 10 mouse organs—including brain, kidney, lung, thymus, large intestine, skin, spleen, ovary, testis, and uterus—encompassing 23 tissue sections generated from 21 chips, each with matched ssDNA or H&E staining images.

The dataset comprises single-cell-resolution (cell-bin) or square bin-50 (25 µm × 25 µm) expression matrices for each sample, accompanied by corresponding cell type annotations. Annotation robustness was further supported by concordance across different sections of the same tissue and corroboration with canonical marker gene expression patterns. Finally, we compared the characteristics of the cell-bin and bin-50 expression matrices and demonstrated the advantages of cell-bin resolution for cell annotation.