Visium HD

Human liver

GSM9521682

bronze Interactive viewer H&E Provisional

Preview Download via Python Download via CLI Load via sddb

print(sdata)

SpatialData object
├── Images
│     ├── 'GSM9521682_Arc-Liver-A1_002um_cytassist_image': DataArray[cyx] (3, 3002, 3200)
│     ├── 'GSM9521682_Arc-Liver-A1_002um_hires_image': DataArray[cyx] (3, 6000, 5828)
│     └── 'GSM9521682_Arc-Liver-A1_002um_lowres_image': DataArray[cyx] (3, 600, 583)
├── Shapes
│     ├── 'GSM9521682_Arc-Liver-A1_002um_square_002um': GeoDataFrame shape: (7927505, 1) (2D shapes)
│     ├── 'GSM9521682_Arc-Liver-A1_002um_square_008um': GeoDataFrame shape: (500570, 1) (2D shapes)
│     ├── 'GSM9521682_Arc-Liver-A1_002um_square_016um': GeoDataFrame shape: (126853, 1) (2D shapes)
│     └── 'GSM9521682_Arc-Liver-A1_002um_square_016um_for_vitessce': GeoDataFrame shape: (126853, 2) (2D shapes)
└── Tables
      ├── 'square_002um': AnnData (7927505, 18132)
      ├── 'square_008um': AnnData (500570, 18132)
      └── 'square_016um': AnnData (126853, 18132)
with coordinate systems:
    ▸ 'GSM9521682_Arc-Liver-A1_002um', with elements:
        GSM9521682_Arc-Liver-A1_002um_cytassist_image (Images), GSM9521682_Arc-Liver-A1_002um_hires_image (Images), GSM9521682_Arc-Liver-A1_002um_lowres_image (Images), GSM9521682_Arc-Liver-A1_002um_square_002um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_008um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_016um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_016um_for_vitessce (Shapes)
    ▸ 'GSM9521682_Arc-Liver-A1_002um_downscaled_hires', with elements:
        GSM9521682_Arc-Liver-A1_002um_hires_image (Images), GSM9521682_Arc-Liver-A1_002um_square_002um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_008um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_016um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_016um_for_vitessce (Shapes)
    ▸ 'GSM9521682_Arc-Liver-A1_002um_downscaled_lowres', with elements:
        GSM9521682_Arc-Liver-A1_002um_lowres_image (Images), GSM9521682_Arc-Liver-A1_002um_square_002um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_008um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_016um (Shapes), GSM9521682_Arc-Liver-A1_002um_square_016um_for_vitessce (Shapes)

Load in Python

import lamindb as ln

db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("fl8Gdod8fd8RGqZY")   # 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/fl8Gdod8fd8RGqZY

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid fl8Gdod8fd8RGqZY

Load with the Python client

# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog

ds = Catalog().cohort(uids=["fl8Gdod8fd8RGqZY0000"])[0]
ds.elements()                 # inspect without downloading
sdata = ds.load(lazy=False)   # copy to the local cache and open

Docs: finding & loading data →

View on Lamin ↗ Open in Vitessce ↗ Flag a data issue

Part of collection

Inference of cell-cell communication in human fetal liver from high definition spatial profiling using Renoir→

2 datasets · publication

Metadata

Technology: Visium HD
Organism: human
Tissue: liver
Modality: RNA
Observations: 500,570
Tier: bronze
Resolution: 5,828 × 6,000 px
mpp: 2.736 µm/px
Size: 1005 MB
Sample ID: GSM9521682
License: unknown
Published: Mar 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