Vizgen MERSCOPE
Human unknown
GSM9238730:region_1
bronze Interactive viewer cancer Provisional
print(sdata)
SpatialData object
├── Points
│ └── 'merscope_region_1_transcripts': DataFrame with shape: (780077, 9) (3D points)
├── Shapes
│ ├── 'merscope_region_1_polygons': GeoDataFrame shape: (86980, 9) (2D shapes)
│ └── 'merscope_region_1_polygons_for_vitessce': GeoDataFrame shape: (86980, 2) (2D shapes)
└── Tables
└── 'table': AnnData (86980, 255)
with coordinate systems:
▸ 'global', with elements:
merscope_region_1_transcripts (Points), merscope_region_1_polygons (Shapes), merscope_region_1_polygons_for_vitessce (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("igGakuN6HjhXtk450000")
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("igGakuN6HjhXtk45") # 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 igGakuN6HjhXtk450000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/igGakuN6HjhXtk45
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid igGakuN6HjhXtk45License: NCBI GEO policy
Metadata
- Technology
- Vizgen MERSCOPE
- Organism
- human
- Tissue
- unknown
- Condition
- cancer
- Modality
- RNA
- Observations (cells)
- 86,980
- Transcripts
- 780,077
- Tier
- bronze
- Size
- 78.9 MB
- Sample ID
- GSM9238730:region_1
- License
- NCBI GEO policy
- Published
- Oct 3, 2025
Cite this dataset
doi.org/10.1038/s41467-025-64990-y ↗ BibTeX
@article{geo:GSM9238730,
doi = {10.1038/s41467-025-64990-y},
title = {GSM9238730:region_1},
year = {2025}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB