Visium
Mouse brain
NCBI800
silver Interactive viewer H&E ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ └── 'NCBI800_full_image': DataTree[cyx] (3, 17209, 17546), (3, 8604, 8773), (3, 4302, 4386), (3, 2151, 2193)
├── Shapes
│ └── 'NCBI800_spots': GeoDataFrame shape: (2784, 2) (2D shapes)
└── Tables
└── 'table': AnnData (2784, 32285)
with coordinate systems:
▸ 'global', with elements:
NCBI800_full_image (Images), NCBI800_spots (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("4uByxHhqpieUJkrC") # 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/4uByxHhqpieUJkrC
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 4uByxHhqpieUJkrC Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["4uByxHhqpieUJkrC0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
A novel model of binge ethanol exposure reveals enhanced neurodegeneration with advanced age→ 4 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations
- 2,784
- Tier
- silver
- Chemistry
- Visium v1
- Magnification
- 20x
- Resolution
- 17,546 × 17,209 px
- mpp
- 0.468 µm/px
- Size
- 856 MB
- Sample ID
- NCBI800
- License
- CC BY-NC-SA 4.0 NonCommercial
- Published
- Mar 18, 2024
Cite this dataset
doi.org/10.1016/j.bbi.2023.12.034 ↗ BibTeX
@article{Anton_2024,
title = {Binge ethanol exposure in advanced age elevates neuroinflammation and early indicators of neurodegeneration and cognitive impairment in female mice},
volume = {116},
ISSN = {0889-1591},
url = {http://dx.doi.org/10.1016/j.bbi.2023.12.034},
DOI = {10.1016/j.bbi.2023.12.034},
journal = {Brain, Behavior, and Immunity},
publisher = {Elsevier BV},
author = {Anton, Paige E. and Rutt, Lauren N. and Kaufman, Michael L. and Busquet, Nicolas and Kovacs, Elizabeth J. and McCullough, Rebecca L.},
year = {2024},
month = Feb,
pages = {303–316}
}Source: sciencedirect.com ↗ · License: CC BY-NC-SA 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB