Visium
Mouse long bone
GSM9873161
bronze Interactive viewer H&E Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9873161_LowStrain_hires_image': DataArray[cyx] (3, 1083, 2000)
│ └── 'GSM9873161_LowStrain_lowres_image': DataArray[cyx] (3, 325, 600)
├── Shapes
│ └── 'GSM9873161_LowStrain': GeoDataFrame shape: (2031, 2) (2D shapes)
└── Tables
└── 'table': AnnData (2031, 19465)
with coordinate systems:
▸ 'GSM9873161_LowStrain', with elements:
GSM9873161_LowStrain_hires_image (Images), GSM9873161_LowStrain_lowres_image (Images), GSM9873161_LowStrain (Shapes)
▸ 'GSM9873161_LowStrain_downscaled_hires', with elements:
GSM9873161_LowStrain_hires_image (Images), GSM9873161_LowStrain (Shapes)
▸ 'GSM9873161_LowStrain_downscaled_lowres', with elements:
GSM9873161_LowStrain_lowres_image (Images), GSM9873161_LowStrain (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("J43mWW29hgGGFyqt0000")
ds.elements() # inspect without downloading
sdata = ds.to_sdata() # cached locally, reused
print(sdata) 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("J43mWW29hgGGFyqt") # 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 Shell
# sddb client: download the .zarr into data/
sddb-cli download J43mWW29hgGGFyqt0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/J43mWW29hgGGFyqt
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid J43mWW29hgGGFyqtLicense: NCBI GEO policy
Part of collection
MALADAPTIVE IMMUNE-FIBROTIC AXIS DRIVES IMPAIRED LONG BONE REGENERATION UNDER MECHANICAL INSTABILITY→ 2 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- long bone
- Modality
- RNA
- Observations (spots)
- 2,031
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 2,000 × 1,083 px
- mpp
- 6.595 µm/px
- Size
- 13.7 MB
- Sample ID
- GSM9873161
- License
- NCBI GEO policy
- Published
- Sep 1, 2026
Cite this dataset
doi.org/10.1126/sciadv.adx7511 ↗ BibTeX
@article{Patrick_2026,
title = {Maladaptive immune-fibrotic axis drives impaired long bone regeneration under mechanical instability},
volume = {12},
ISSN = {2375-2548},
url = {http://dx.doi.org/10.1126/sciadv.adx7511},
DOI = {10.1126/sciadv.adx7511},
number = {35},
journal = {Science Advances},
publisher = {American Association for the Advancement of Science (AAAS)},
author = {Patrick, Matthew D. and Ahn, Jaimo and Hankenson, Kurt D. and Annamalai, Ramkumar T.},
year = {2026},
month = Aug
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB