Visium HD
Human intestine
GSM9219228
silver Interactive viewer H&E graft versus host disease ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_hires_image': DataArray[cyx] (3, 3808, 6000)
│ └── 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_lowres_image': DataArray[cyx] (3, 381, 600)
├── Shapes
│ ├── 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_002um': GeoDataFrame shape: (2635290, 1) (2D shapes)
│ ├── 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_008um': GeoDataFrame shape: (168857, 1) (2D shapes)
│ ├── 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_016um': GeoDataFrame shape: (43472, 1) (2D shapes)
│ └── 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_016um_for_vitessce': GeoDataFrame shape: (43472, 2) (2D shapes)
└── Tables
├── 'square_002um': AnnData (2635290, 18085)
├── 'square_008um': AnnData (168857, 18085)
└── 'square_016um': AnnData (43472, 18085)
with coordinate systems:
▸ 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix', with elements:
GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_hires_image (Images), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_lowres_image (Images), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_002um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_008um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_016um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_016um_for_vitessce (Shapes)
▸ 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_downscaled_hires', with elements:
GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_hires_image (Images), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_002um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_008um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_016um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_016um_for_vitessce (Shapes)
▸ 'GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_downscaled_lowres', with elements:
GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_lowres_image (Images), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_002um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_008um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_016um (Shapes), GSM9219228_SLV17_binned_outputs_square_002um_filtered_feature_bc_matrix_square_016um_for_vitessce (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("F5cr2dMhHwnCAkaS") # 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/F5cr2dMhHwnCAkaS
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid F5cr2dMhHwnCAkaS Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["F5cr2dMhHwnCAkaS0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Spatiotemporal Single-Cell Profiling Reveals T Cell Clonal Dynamics and Phenotypic Plasticity in Human Graft-versus-Host Disease→ 8 datasets · publication
Metadata
- Technology
- Visium HD
- Organism
- human
- Tissue
- intestine
- Condition
- graft versus host disease
- Modality
- RNA
- Observations
- 168,857
- Tier
- silver
- Resolution
- 6,000 × 3,808 px
- mpp
- 1.041 µm/px
- Size
- 361 MB
- Sample ID
- GSM9219228
- License
- unknown
- Published
- Jun 24, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB