Vizgen MERSCOPE
Human tonsil
GSM8649280
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Shapes
│ └── 'cell_circles': GeoDataFrame shape: (1099313, 2) (2D shapes)
└── Tables
└── 'table': AnnData (1099313, 443)
with coordinate systems:
▸ 'global', with elements:
cell_circles (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("xaQR1SoTMfZkYo0g0000")
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("xaQR1SoTMfZkYo0g") # 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 xaQR1SoTMfZkYo0g0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/xaQR1SoTMfZkYo0g
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid xaQR1SoTMfZkYo0gLicense: NCBI GEO policy
Metadata
- Technology
- Vizgen MERSCOPE
- Organism
- human
- Tissue
- tonsil
- Modality
- RNA
- Observations (cells)
- 1,099,313
- Tier
- bronze
- Size
- 392 MB
- Sample ID
- GSM8649280
- License
- NCBI GEO policy
- Published
- Nov 24, 2024
Cite this dataset
doi.org/10.1016/j.cels.2025.101235 ↗ BibTeX
@article{geo:GSM8649280,
doi = {10.1016/j.cels.2025.101235},
title = {GSM8649280},
year = {2025}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB