10x Xenium
Human hippocampal formation
GSM9822869
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 54453, 48343), (1, 27226, 24171), (1, 13613, 12085), (1, 6806, 6042), (1, 3403, 3021)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (53421, 48221), (26710, 24110), (13355, 12055), (6677, 6027), (3338, 3013)
│ └── 'nucleus_labels': DataTree[yx] (52294, 47082), (26147, 23541), (13073, 11770), (6536, 5885), (3268, 2942)
├── Points
│ └── 'transcripts': DataFrame with shape: (78734034, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (124626, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (124626, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (123368, 2) (2D shapes)
└── Tables
└── 'table': AnnData (124626, 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("qVJBPUuuClTKMzRs0000")
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("qVJBPUuuClTKMzRs") # 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 qVJBPUuuClTKMzRs0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/qVJBPUuuClTKMzRs
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid qVJBPUuuClTKMzRsLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- hippocampal formation
- Modality
- RNA
- Observations (cells)
- 124,626
- Transcripts
- 78,734,034
- Tier
- bronze
- Size
- 4.5 GB
- Sample ID
- GSM9822869
- License
- NCBI GEO policy
- Published
- Jul 31, 2026
Cite this dataset
doi.org/10.1016/j.cell.2026.07.007 ↗ BibTeX
@article{geo:GSM9822869,
doi = {10.1016/j.cell.2026.07.007},
title = {GSM9822869},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB