10x Xenium
Human brain
GSM9054470
bronze Interactive viewer ependymoma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23871, 19943), (1, 11935, 9971), (1, 5967, 4985), (1, 2983, 2492), (1, 1491, 1246)
├── Points
│ └── 'transcripts': DataFrame with shape: (15386447, 11) (3D points)
├── Shapes
│ └── 'cell_circles': GeoDataFrame shape: (64052, 2) (2D shapes)
└── Tables
└── 'table': AnnData (64052, 366)
with coordinate systems:
▸ 'global', with elements:
morphology_mip (Images), transcripts (Points), cell_circles (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("mdVvmU575wh4HN8I0000")
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("mdVvmU575wh4HN8I") # 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 mdVvmU575wh4HN8I0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/mdVvmU575wh4HN8I
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid mdVvmU575wh4HN8ILicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- brain
- Condition
- ependymoma
- Modality
- RNA
- Observations (cells)
- 64,052
- Transcripts
- 15,386,447
- Tier
- bronze
- Size
- 1.1 GB
- Sample ID
- GSM9054470
- License
- NCBI GEO policy
- Published
- Dec 9, 2025
Cite this dataset
doi.org/10.1038/s41586-026-10214-2 ↗ BibTeX
@article{geo:GSM9054470,
doi = {10.1038/s41586-026-10214-2},
title = {GSM9054470},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB