10x Xenium
Branchiostoma floridae brain
GSM9668023
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 95098, 34153), (1, 47549, 17076), (1, 23774, 8538), (1, 11887, 4269), (1, 5943, 2134)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (92163, 32135), (46081, 16067), (23040, 8033), (11520, 4016), (5760, 2008)
│ └── 'nucleus_labels': DataTree[yx] (92118, 32089), (46059, 16044), (23029, 8022), (11514, 4011), (5757, 2005)
├── Points
│ └── 'transcripts': DataFrame with shape: (14402305, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (51540, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (51540, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (51540, 2) (2D shapes)
└── Tables
└── 'table': AnnData (51540, 473)
with coordinate systems:
▸ 'global', with elements:
morphology_mip (Images), cell_labels (Labels), nucleus_labels (Labels), transcripts (Points), cell_boundaries (Shapes), cell_circles (Shapes), nucleus_boundaries (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("ByFVDMDskG0Haro2") # 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/ByFVDMDskG0Haro2
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid ByFVDMDskG0Haro2 Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["ByFVDMDskG0Haro20000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- branchiostoma floridae
- Tissue
- brain
- Modality
- RNA
- Observations
- 51,540
- Transcripts
- 14,402,305
- Tier
- bronze
- Size
- 1.7 GB
- Sample ID
- GSM9668023
- License
- unknown
- Published
- May 7, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB