10x Xenium
Mouse brain
GSM9489196
silver Interactive viewer ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_focus': DataTree[cyx] (1, 20479, 22775), (1, 10239, 11387), (1, 5119, 5693), (1, 2559, 2846), (1, 1279, 1423)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (20479, 22775), (10239, 11387), (5119, 5693), (2559, 2846), (1279, 1423)
│ └── 'nucleus_labels': DataTree[yx] (20479, 22775), (10239, 11387), (5119, 5693), (2559, 2846), (1279, 1423)
├── Points
│ └── 'transcripts': DataFrame with shape: (27972827, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (115387, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (115387, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (115387, 2) (2D shapes)
└── Tables
└── 'table': AnnData (115387, 347)
with coordinate systems:
▸ 'global', with elements:
morphology_focus (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("aoeGu8c28cVs8if1") # 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/aoeGu8c28cVs8if1
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid aoeGu8c28cVs8if1 Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["aoeGu8c28cVs8if10000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Single-cell multiomic approaches define a gradual, spatially-regulated epigenetic and transcriptional transition from embryonic to adult neural stem cells [Xenium]→ 10 datasets · comparison
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations
- 115,387
- Transcripts
- 27,972,827
- Tier
- silver
- Chemistry
- Xenium v1
- Size
- 1.5 GB
- Sample ID
- GSM9489196
- License
- NCBI GEO policy
- Published
- Jun 18, 2026
Cite this dataset
doi.org/10.1016/j.stemcr.2026.102967 ↗ BibTeX
@article{Wang_2026,
title = {Single-cell multiomic approaches define a gradual, spatially regulated epigenetic and transcriptional transition from embryonic to adult neural stem cells},
volume = {21},
ISSN = {2213-6711},
url = {http://dx.doi.org/10.1016/j.stemcr.2026.102967},
DOI = {10.1016/j.stemcr.2026.102967},
number = {7},
journal = {Stem Cell Reports},
publisher = {Elsevier BV},
author = {Wang, Beatrix S. and Karamboulas, Konstantina and Tahmasian, Nareh and Dennis, Daniel J. and Kaplan, David R. and Miller, Freda D.},
year = {2026},
month = July,
pages = {102967}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB