Atera
Human uterine cervix
Preview Data: Atera In Situ Gene Expression, FFPE Human Cervical Cancer
silver Interactive viewer H&E squamous cell carcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'he_image': DataTree[cyx] (3, 36595, 35881), (3, 18297, 17940), (3, 9148, 8970), (3, 4574, 4485), (3, 2287, 2242)
│ └── 'morphology_focus': DataTree[cyx] (4, 41877, 42001), (4, 20938, 21000), (4, 10469, 10500), (4, 5234, 5250), (4, 2617, 2625)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (41877, 42001), (20938, 21000), (10469, 10500), (5234, 5250), (2617, 2625)
│ └── 'nucleus_labels': DataTree[yx] (41877, 42001), (20938, 21000), (10469, 10500), (5234, 5250), (2617, 2625)
├── Points
│ └── 'transcripts': DataFrame with shape: (1235087993, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (717576, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (717576, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (719437, 2) (2D shapes)
└── Tables
└── 'table': AnnData (717576, 18028)
with coordinate systems:
▸ 'global', with elements:
he_image (Images), morphology_focus (Images), cell_labels (Labels), nucleus_labels (Labels), transcripts (Points), cell_boundaries (Shapes), cell_circles (Shapes), nucleus_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("HJozpYNEQ652yzNM0001")
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("HJozpYNEQ652yzNM") # 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 HJozpYNEQ652yzNM0001 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/HJozpYNEQ652yzNM
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid HJozpYNEQ652yzNMLicense: CC BY 4.0
Metadata
- Technology
- Atera
- Vendor
- 10x Genomics
- Organism
- human
- Tissue
- uterine cervix
- Condition
- squamous cell carcinoma
- Modality
- RNA
- Observations (cells)
- 717,576
- Transcripts
- 1,235,087,993
- Tier
- silver
- Chemistry
- Atera Preproduction
- Magnification
- 40x
- Resolution
- 35,881 × 36,595 px
- Size
- 43.6 GB
- Sample ID
- atera-wta-ffpe-human-cervical-cancer
- License
- CC BY 4.0
- Published
- Apr 18, 2026
Cite this dataset
No linked publication found — please cite the data source: 10x Genomics ↗.
Source: 10x Genomics ↗ · License: CC BY 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB