Supporting data (4 files)

Benchmarking Stereo-seq data from the adult mouse olfactory bulb and adult mouse hemi-brain.

You can use Aspera to download the data. Here is the help document.

Embryo data (58 files)

Stereo-seq data from each mouse embryo in MOSAT database, including bin 50 and segmented single-cell.

Bin1 matrix (56 files)

Gene expression matrix for each mouse embryo section. Columns, "X" and "Y" correspond to the coordinates of each DNB on the captured chip, “MIDCounts” corresponds to the number of UMI for each gene at each DNB.

Cell_bin matrix (8 files)

Gene expression matrix of the segmented single-cell for the embryo or adult mouse hemi-brain sections. "label" corresponds to the ID of each segmented single-cell, and the "0" label corresponds to the DNB that were not included in any segmented single-cell.

Image of nuclei acid staining (6 files)

Nuclei acid staining for the sections used for single-cell segmentation.

Barcode2Position (56 files)

The spatial position of each CID resultant from first round sequencing, which serves as the coordinate reference for the SAW pipeline.

Table (2 files)

Tissue or cell type-specific markers used for annotations in MOSTA. And expression of genes related to the pseudotime of interneuron migration, and genes related to the pseudotime of neurogenesis or gliogenesis in the developing dorsal midbrain.