Visium
Human blood vessel
GSM6703214
bronze Interactive viewer H&E Loeys-Dietz syndrome Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'GSM6703214_Replicate1_iWT_hires_image': DataArray[cyx] (3, 1925, 2000)
├── Shapes
│ └── 'GSM6703214_Replicate1_iWT': GeoDataFrame shape: (1100, 2) (2D shapes)
└── Tables
└── 'table': AnnData (1100, 17943)
with coordinate systems:
▸ 'GSM6703214_Replicate1_iWT', with elements:
GSM6703214_Replicate1_iWT_hires_image (Images), GSM6703214_Replicate1_iWT (Shapes)
▸ 'GSM6703214_Replicate1_iWT_downscaled_hires', with elements:
GSM6703214_Replicate1_iWT_hires_image (Images), GSM6703214_Replicate1_iWT (Shapes)
▸ 'GSM6703214_Replicate1_iWT_downscaled_lowres', with elements:
GSM6703214_Replicate1_iWT (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("jqUpAUmjR8rxMmBH") # 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/jqUpAUmjR8rxMmBH
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid jqUpAUmjR8rxMmBH Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["jqUpAUmjR8rxMmBH0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Spatial transcriptomic profiling of Patient and Patient-corrected bioengineered vascular grafts.→ 4 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- blood vessel
- Condition
- Loeys-Dietz syndrome
- Modality
- RNA
- Observations
- 1,100
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 2,000 × 1,925 px
- mpp
- 3.847 µm/px
- Size
- 11 MB
- Sample ID
- GSM6703214
- License
- unknown
- Published
- May 8, 2024
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB