Visium
Mouse liver
GSM8983433
silver Interactive viewer H&E liver and intrahepatic bile duct neoplasm ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM8983433_s19_full_image': DataTree[cyx] (3, 3000, 3000), (3, 1500, 1500), (3, 750, 750), (3, 375, 375), (3, 187, 187)
│ ├── 'GSM8983433_s19_hires_image': DataArray[cyx] (3, 2000, 1945)
│ └── 'GSM8983433_s19_lowres_image': DataArray[cyx] (3, 600, 584)
├── Shapes
│ └── 'GSM8983433_s19': GeoDataFrame shape: (4699, 2) (2D shapes)
└── Tables
└── 'table': AnnData (4699, 19465)
with coordinate systems:
▸ 'GSM8983433_s19', with elements:
GSM8983433_s19_full_image (Images), GSM8983433_s19_hires_image (Images), GSM8983433_s19_lowres_image (Images), GSM8983433_s19 (Shapes)
▸ 'GSM8983433_s19_downscaled_hires', with elements:
GSM8983433_s19_hires_image (Images), GSM8983433_s19 (Shapes)
▸ 'GSM8983433_s19_downscaled_lowres', with elements:
GSM8983433_s19_lowres_image (Images), GSM8983433_s19 (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("oEjIBSePSA2Iczj4") # 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/oEjIBSePSA2Iczj4
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid oEjIBSePSA2Iczj4 Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["oEjIBSePSA2Iczj40000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Inhibition of ACLY enhances tumor immunogenicity and resolves MASH-driven HCC→ 4 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- liver
- Condition
- liver and intrahepatic bile duct neoplasm
- Modality
- RNA
- Observations
- 4,699
- Tier
- silver
- Chemistry
- Visium CytAssist v2
- Resolution
- 3,000 × 3,000 px
- mpp
- 1.977 µm/px
- Size
- 103 MB
- Sample ID
- GSM8983433
- License
- CC BY 4.0
- Published
- Jun 30, 2025
Cite this dataset
doi.org/10.1038/s41586-025-09297-0 ↗ BibTeX
@article{Gautam_2025,
title = {ACLY inhibition promotes tumour immunity and suppresses liver cancer},
volume = {645},
ISSN = {1476-4687},
url = {http://dx.doi.org/10.1038/s41586-025-09297-0},
DOI = {10.1038/s41586-025-09297-0},
number = {8080},
journal = {Nature},
publisher = {Springer Science and Business Media LLC},
author = {Gautam, Jaya and Wu, Jianhan and Lally, James S. V. and McNicol, Jamie D. and Fayyazi, Russta and Ahmadi, Elham and Oniciu, Daniela Carmen and Heaton, Spencer and Newton, Roger S. and Rehal, Sonia and Bhattacharya, Dipankar and Di Pastena, Fiorella and Nguyen, Binh and Valvano, Celina M. and Townsend, Logan K. and Banskota, Suhrid and Batchuluun, Battsetseg and Jabile, Maria Joy Therese and Payne, Alice and Lu, Junfeng and Desjardins, Eric M. and Kubota, Naoto and Tsakiridis, Evangelia E. and Mistry, Bejal and Aganostopoulos, Alex and Houde, Vanessa and Dansercoer, Ann and Verschueren, Koen H. G. and Savvides, Savvas N. and Hammill, Joanne A. and Bezverbnaya, Ksenia and Muti, Paola and Tsakiridis, Theodoros and Dai, Wenting and Jiang, Lei and Hoshida, Yujin and Larché, Mark and Bramson, Jonathan L. and Friedman, Scott L. and Verstraete, Kenneth and Wang, Dongdong and Steinberg, Gregory R.},
year = {2025},
month = July,
pages = {507–517}
}Source: NCBI GEO ↗ · License: CC BY 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB