10x Xenium
Mouse lung
GSM9830049
bronze Interactive viewer tuberculosis Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 34069, 51133), (1, 17034, 25566), (1, 8517, 12783), (1, 4258, 6391), (1, 2129, 3195)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (33905, 47288), (16952, 23644), (8476, 11822), (4238, 5911), (2119, 2955)
│ └── 'nucleus_labels': DataTree[yx] (33863, 47257), (16931, 23628), (8465, 11814), (4232, 5907), (2116, 2953)
├── Points
│ └── 'transcripts': DataFrame with shape: (121852460, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (312610, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (312610, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (314236, 2) (2D shapes)
└── Tables
└── 'table': AnnData (312610, 429)
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) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("ByENwX3C2IJzDs1e") # 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 Load from the CLI
# one-shot: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/ByENwX3C2IJzDs1e
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid ByENwX3C2IJzDs1e Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["ByENwX3C2IJzDs1e0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- lung
- Condition
- tuberculosis
- Modality
- RNA
- Observations
- 312,610
- Transcripts
- 121,852,460
- Tier
- bronze
- Size
- 4.4 GB
- Sample ID
- GSM9830049
- License
- unknown
- Published
- Jun 26, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB