10x Xenium
Human bone marrow
GSM10001168
bronze Interactive viewer plasma cell myeloma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 98489, 48274), (1, 49244, 24137), (1, 24622, 12068), (1, 12311, 6034), (1, 6155, 3017)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (98207, 48274), (49103, 24137), (24551, 12068), (12275, 6034), (6137, 3017)
│ └── 'nucleus_labels': DataTree[yx] (98160, 48255), (49080, 24127), (24540, 12063), (12270, 6031), (6135, 3015)
├── Points
│ └── 'transcripts': DataFrame with shape: (50124252, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (701075, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (701075, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (701075, 2) (2D shapes)
└── Tables
└── 'table': AnnData (701075, 480)
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("9AxUUhHS3RLiTBaS0000")
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("9AxUUhHS3RLiTBaS") # 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 9AxUUhHS3RLiTBaS0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/9AxUUhHS3RLiTBaS
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 9AxUUhHS3RLiTBaSLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- bone marrow
- Condition
- plasma cell myeloma
- Modality
- RNA
- Observations (cells)
- 701,075
- Transcripts
- 50,124,252
- Tier
- bronze
- Size
- 5.8 GB
- Sample ID
- GSM10001168
- License
- NCBI GEO policy
- Published
- Aug 28, 2026
Cite this dataset
doi.org/10.1158/2643-3230.BCD-26-0080 ↗ BibTeX
@article{geo:GSM10001168,
doi = {10.1158/2643-3230.BCD-26-0080},
title = {GSM10001168},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB