Visium

Mouse brain

GSM7946817

bronze Interactive viewer H&E Provisional

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Images
│     ├── 'GSM7946817_ECT30min-B1S2-SLAM_hires_image': DataArray[cyx] (3, 1990, 2000)
│     └── 'GSM7946817_ECT30min-B1S2-SLAM_lowres_image': DataArray[cyx] (3, 597, 600)
├── Shapes
│     └── 'GSM7946817_ECT30min-B1S2-SLAM': GeoDataFrame shape: (2377, 2) (2D shapes)
└── Tables
      └── 'table': AnnData (2377, 55357)
with coordinate systems:
    ▸ 'GSM7946817_ECT30min-B1S2-SLAM', with elements:
        GSM7946817_ECT30min-B1S2-SLAM_hires_image (Images), GSM7946817_ECT30min-B1S2-SLAM_lowres_image (Images), GSM7946817_ECT30min-B1S2-SLAM (Shapes)
    ▸ 'GSM7946817_ECT30min-B1S2-SLAM_downscaled_hires', with elements:
        GSM7946817_ECT30min-B1S2-SLAM_hires_image (Images), GSM7946817_ECT30min-B1S2-SLAM (Shapes)
    ▸ 'GSM7946817_ECT30min-B1S2-SLAM_downscaled_lowres', with elements:
        GSM7946817_ECT30min-B1S2-SLAM_lowres_image (Images), GSM7946817_ECT30min-B1S2-SLAM (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("NjUPu6pIprd7NMRx0000")
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("NjUPu6pIprd7NMRx")   # 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 NjUPu6pIprd7NMRx0000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/NjUPu6pIprd7NMRx

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid NjUPu6pIprd7NMRx

Install (Python 3.12+) Docs →

License: NCBI GEO policy

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Part of collection

Spatial mapping of RNA turnover kinetics in the mouse brain [Spatial NT-seq]→

19 datasets · time course

Metadata

Technology: Visium
Organism: mouse
Tissue: brain
Modality: RNA
Observations (spots): 2,377
Tier: bronze
Chemistry: Visium v1
Magnification: other
Resolution: 2,000 × 1,990 px
mpp: 3.444 µm/px
Size: 36.6 MB
Sample ID: GSM7946817
License: NCBI GEO policy
Published: Jun 12, 2026

Cite this dataset

doi.org/10.1038/s41593-026-02420-y ↗

BibTeX

@article{Qiu_2026,
  title = {Spatial mapping of RNA turnover kinetics in the mouse brain},
  ISSN = {1546-1726},
  url = {http://dx.doi.org/10.1038/s41593-026-02420-y},
  DOI = {10.1038/s41593-026-02420-y},
  journal = {Nature Neuroscience},
  publisher = {Springer Science and Business Media LLC},
  author = {Qiu, Qi and Zhang, Hongjie and Xia, Zijie and Gao, William and Leu, Julia I. and Liang, Dongming and Li, Ying and Li, Fan and Su, Yijing and Feierman, Emily and Van Horn, Erin and Ming, Guo-li and Korb, Erica and Song, Hongjun and Zhou, Zhaolan and Wu, Hao},
  year = {2026},
  month = Aug
}

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