Visium

Human mediastinal lymph node

GSM8576304

silver Interactive viewer H&E acute myeloid leukemia No linked publication

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Images
│     ├── 'GSM8576304_EM2_full_image': DataTree[cyx] (3, 3000, 3000), (3, 1500, 1500), (3, 750, 750), (3, 375, 375), (3, 187, 187)
│     ├── 'GSM8576304_EM2_hires_image': DataArray[cyx] (3, 2000, 2000)
│     └── 'GSM8576304_EM2_lowres_image': DataArray[cyx] (3, 600, 600)
├── Shapes
│     └── 'GSM8576304_EM2': GeoDataFrame shape: (4437, 2) (2D shapes)
└── Tables
      └── 'table': AnnData (4437, 18085)
with coordinate systems:
    ▸ 'GSM8576304_EM2', with elements:
        GSM8576304_EM2_full_image (Images), GSM8576304_EM2_hires_image (Images), GSM8576304_EM2_lowres_image (Images), GSM8576304_EM2 (Shapes)
    ▸ 'GSM8576304_EM2_downscaled_hires', with elements:
        GSM8576304_EM2_hires_image (Images), GSM8576304_EM2 (Shapes)
    ▸ 'GSM8576304_EM2_downscaled_lowres', with elements:
        GSM8576304_EM2_lowres_image (Images), GSM8576304_EM2 (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("toFXPXAUkQKRGb4I0000")
ds.elements()          # inspect without downloading
sdata = ds.to_sdata()  # cached locally, reused
print(sdata)

Install (Python 3.12+) Docs →

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("toFXPXAUkQKRGb4I")   # 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

Install (Python 3.12+) Docs →

Shell

# sddb client: download the .zarr into data/
sddb-cli download toFXPXAUkQKRGb4I0000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/toFXPXAUkQKRGb4I

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid toFXPXAUkQKRGb4I

Install (Python 3.12+) Docs →

License: NCBI GEO policy

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Part of collection

Integrative Spatial Multi-Omics Reveal Niche-Specific Inflammatory Signaling and Differentiation Hierarchies in Acute Myeloid Leukemia→

6 datasets · other

Metadata

Technology: Visium
Organism: human
Tissue: mediastinal lymph node
Condition: acute myeloid leukemia
Modality: RNA
Observations (spots): 4,437
Tier: silver
Chemistry: Visium v1
Resolution: 3,000 × 3,000 px
mpp: 4.238 µm/px
Size: 43.2 MB
Sample ID: GSM8576304
License: NCBI GEO policy
Published: Nov 25, 2025

Cite this dataset

No linked publication found — please cite the data source: NCBI GEO ↗.

Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB