Atera
Human kidney
Atera In Situ Gene Expression, FFPE Human Kidney
silver Interactive viewer H&E No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'he_image': DataTree[cyx] (3, 42169, 23628), (3, 21084, 11814), (3, 10542, 5907), (3, 5271, 2953), (3, 2635, 1476)
│ └── 'morphology': DataTree[cyx] (4, 33139, 56644), (4, 16569, 28322), (4, 8284, 14161), (4, 4142, 7080), (4, 2071, 3540)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (33139, 56644), (16569, 28322), (8284, 14161), (4142, 7080), (2071, 3540)
│ └── 'nucleus_labels': DataTree[yx] (33139, 56644), (16569, 28322), (8284, 14161), (4142, 7080), (2071, 3540)
├── Points
│ └── 'transcripts': DataFrame with shape: (1186813834, 7) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (399120, 1) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (398197, 2) (2D shapes)
└── Tables
└── 'table': AnnData (399120, 24674)
with coordinate systems:
▸ 'global', with elements:
he_image (Images), morphology (Images), cell_labels (Labels), nucleus_labels (Labels), transcripts (Points), cell_boundaries (Shapes), nucleus_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("wp9BiiVuas1XuPXO0001")
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("wp9BiiVuas1XuPXO") # 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 wp9BiiVuas1XuPXO0001 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/wp9BiiVuas1XuPXO
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid wp9BiiVuas1XuPXOLicense: CC BY 4.0
Metadata
- Technology
- Atera
- Vendor
- 10x Genomics
- Panel
- Atera Human Whole Transcriptome Gene Expression
- Organism
- human
- Tissue
- kidney
- Modality
- RNA
- Observations (cells)
- 399,120
- Transcripts
- 1,186,813,834
- Tier
- silver
- Chemistry
- Atera v1
- Magnification
- 40x
- Resolution
- 23,628 × 42,169 px
- Size
- 34.0 GB
- Sample ID
- atera-wta-ffpe-human-nd-kidney
- License
- CC BY 4.0
- Published
- Oct 15, 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