10x Xenium
Human hippocampal formation
GSM9822867
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 34081, 36978), (1, 17040, 18489), (1, 8520, 9244), (1, 4260, 4622), (1, 2130, 2311)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (33664, 34950), (16832, 17475), (8416, 8737), (4208, 4368), (2104, 2184)
│ └── 'nucleus_labels': DataTree[yx] (33653, 34082), (16826, 17041), (8413, 8520), (4206, 4260), (2103, 2130)
├── Points
│ └── 'transcripts': DataFrame with shape: (13950839, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (29783, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (29783, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (29609, 2) (2D shapes)
└── Tables
└── 'table': AnnData (29783, 300)
with coordinate systems:
▸ 'global', with elements:
morphology_mip (Images), cell_labels (Labels), nucleus_labels (Labels), transcripts (Points), cell_boundaries (Shapes), cell_circles (Shapes), nucleus_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("w2Rg3jBuWYiQJIYz0000")
ds.elements() # inspect without downloading
sdata = ds.to_sdata() # cached locally, reused
print(sdata) Python · lamindb
Needs pip install lamindb and network access to the Lamin database, which is limited during the alpha. If it fails, use the Client tab.
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("w2Rg3jBuWYiQJIYz") # stem uid: Lamin resolves it to the latest version
sdata = artifact.load() # cache, then load into memory
group = artifact.open() # stream without downloading
path = artifact.cache() # sync into the local cache, returns the path Shell
# sddb client: download the .zarr into data/
sddb-cli download w2Rg3jBuWYiQJIYz0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/w2Rg3jBuWYiQJIYz
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid w2Rg3jBuWYiQJIYzLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- hippocampal formation
- Modality
- RNA
- Observations (cells)
- 29,783
- Transcripts
- 13,950,839
- Tier
- bronze
- Size
- 1.6 GB
- Sample ID
- GSM9822867
- License
- NCBI GEO policy
- Published
- Jul 31, 2026
Cite this dataset
doi.org/10.1016/j.cell.2026.07.007 ↗ BibTeX
@article{geo:GSM9822867,
doi = {10.1016/j.cell.2026.07.007},
title = {GSM9822867},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB