10x Xenium
Human bone marrow
GSM10001170
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (105284, 53934), (52642, 26967), (26321, 13483), (13160, 6741), (6580, 3370)
│ └── 'nucleus_labels': DataTree[yx] (105243, 53914), (52621, 26957), (26310, 13478), (13155, 6739), (6577, 3369)
├── Points
│ └── 'transcripts': DataFrame with shape: (42844408, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (971259, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (971259, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (971259, 2) (2D shapes)
└── Tables
└── 'table': AnnData (971259, 480)
with coordinate systems:
▸ 'global', with elements:
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("TJSFjxA7ImkElO9f0000")
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("TJSFjxA7ImkElO9f") # 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 TJSFjxA7ImkElO9f0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/TJSFjxA7ImkElO9f
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid TJSFjxA7ImkElO9fLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- bone marrow
- Modality
- RNA
- Observations (cells)
- 971,259
- Transcripts
- 42,844,408
- Tier
- bronze
- Size
- 1.8 GB
- Sample ID
- GSM10001170
- License
- NCBI GEO policy
- Published
- Aug 28, 2026
Cite this dataset
doi.org/10.1158/2643-3230.BCD-26-0080 ↗ BibTeX
@article{geo:GSM10001170,
doi = {10.1158/2643-3230.BCD-26-0080},
title = {GSM10001170},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB