10x Xenium
Mouse bone element
GSM9703602
silver Interactive viewer melanoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 44081, 54161), (1, 22040, 27080), (1, 11020, 13540), (1, 5510, 6770), (1, 2755, 3385)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (44027, 54127), (22013, 27063), (11006, 13531), (5503, 6765), (2751, 3382)
│ └── 'nucleus_labels': DataTree[yx] (43999, 54121), (21999, 27060), (10999, 13530), (5499, 6765), (2749, 3382)
├── Points
│ └── 'transcripts': DataFrame with shape: (36743463, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (119458, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (119458, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (119400, 2) (2D shapes)
└── Tables
└── 'table': AnnData (119458, 5046)
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("7nukzLlRVYDGTlhp0000")
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("7nukzLlRVYDGTlhp") # 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 7nukzLlRVYDGTlhp0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/7nukzLlRVYDGTlhp
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 7nukzLlRVYDGTlhpLicense: NCBI GEO policy
Part of collection
Spatial transcriptomics of bone taken from two PRF1-/- B16F10-injected and one PRF1-/- healthy control- bone tissues using Xenium→ 6 datasets · comparison
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- bone element
- Condition
- melanoma
- Modality
- RNA
- Observations (cells)
- 119,458
- Transcripts
- 36,743,463
- Tier
- silver
- Size
- 2.6 GB
- Sample ID
- GSM9703602
- License
- NCBI GEO policy
- Published
- Jul 28, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB