10x Xenium
Human hippocampal formation
GSM9822870
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 30671, 37000), (1, 15335, 18500), (1, 7667, 9250), (1, 3833, 4625), (1, 1916, 2312)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (29555, 34393), (14777, 17196), (7388, 8598), (3694, 4299), (1847, 2149)
│ └── 'nucleus_labels': DataTree[yx] (29531, 34387), (14765, 17193), (7382, 8596), (3691, 4298), (1845, 2149)
├── Points
│ └── 'transcripts': DataFrame with shape: (18780006, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (30958, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (30958, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (31199, 2) (2D shapes)
└── Tables
└── 'table': AnnData (30958, 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("xHaR2mdH07h1PVm00000")
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("xHaR2mdH07h1PVm0") # 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 xHaR2mdH07h1PVm00000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/xHaR2mdH07h1PVm0
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid xHaR2mdH07h1PVm0License: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- hippocampal formation
- Modality
- RNA
- Observations (cells)
- 30,958
- Transcripts
- 18,780,006
- Tier
- bronze
- Size
- 1.3 GB
- Sample ID
- GSM9822870
- License
- NCBI GEO policy
- Published
- Jul 31, 2026
Cite this dataset
doi.org/10.1016/j.cell.2026.07.007 ↗ BibTeX
@article{geo:GSM9822870,
doi = {10.1016/j.cell.2026.07.007},
title = {GSM9822870},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB