Visium
Mouse cerebral cortex
GSM8577747
bronze Interactive viewer H&E Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM8577747_Cond4_hires_image': DataArray[cyx] (3, 1914, 2000)
│ └── 'GSM8577747_Cond4_lowres_image': DataArray[cyx] (3, 574, 600)
├── Shapes
│ └── 'GSM8577747_Cond4': GeoDataFrame shape: (2184, 2) (2D shapes)
└── Tables
└── 'table': AnnData (2184, 21866)
with coordinate systems:
▸ 'GSM8577747_Cond4', with elements:
GSM8577747_Cond4_hires_image (Images), GSM8577747_Cond4_lowres_image (Images), GSM8577747_Cond4 (Shapes)
▸ 'GSM8577747_Cond4_downscaled_hires', with elements:
GSM8577747_Cond4_hires_image (Images), GSM8577747_Cond4 (Shapes)
▸ 'GSM8577747_Cond4_downscaled_lowres', with elements:
GSM8577747_Cond4_lowres_image (Images), GSM8577747_Cond4 (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("wBzW554aeHbzdYkp") # 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/wBzW554aeHbzdYkp
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid wBzW554aeHbzdYkp Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["wBzW554aeHbzdYkp0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Single cell deletion of the transcription factors Sox9 and Trps1 reveals novel functions in adult cortical astrocytes [Spatial transcriptomics]→ 4 datasets · other
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- cerebral cortex
- Modality
- RNA
- Observations
- 2,184
- Tier
- bronze
- Chemistry
- Visium v1
- Magnification
- other
- Resolution
- 2,000 × 1,914 px
- mpp
- 3.612 µm/px
- Size
- 24 MB
- Sample ID
- GSM8577747
- License
- unknown
- Published
- Feb 10, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB