Mouse hippocampal formation
GSM4656180
mouse hippocampal formation 48.7 MB 2,560 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuehippocampal formation
Spots2,560
silver H&E NCBI GEO policy
Collections / The spatial landscape of gene expression isoforms in tissue sections
The spatial landscape of gene expression isoforms in tissue sections
Mouse brain 10x Genomics Visium Spatial Transcriptomics profiles sequence either with Illumina for standard profiling and Nanopore promethION long read sequencer for full-length profiling.
Datasets3
Size~108 MB
AssayVisium
Samplemouse · multiple
KindOther
Download the whole collection
Python · sddb client
from sddb import Catalog
cohort = Catalog().collection("geo-gse153859")
cohort.members # the 3 datasets as a table
print(cohort.licenses()) # check the terms before you download
sdatas = cohort.to_dict() # {uid: SpatialData}, cached locally
# or keep the .zarr files in a folder of your choice:
# sdatas = cohort.to_dict(dest="data/") 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")
coll = db.Collection.get(key="geo-gse153859")
coll.ordered_artifacts.to_dataframe() # the 3 members, ordered
# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()] Shell
# sddb client: download every member .zarr into data/
sddb-cli download --collection geo-gse153859 --dest data/Licenses: 3 NCBI GEO policy
Member datasets · 3
Mouse olfactory bulb
GSM4656181
mouse olfactory bulb 14.7 MB 918 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueolfactory bulb
Spots918
silver H&E NCBI GEO policy
Mouse hippocampal formation
GSM4656179
mouse hippocampal formation 44.7 MB 2,500 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuehippocampal formation
Spots2,500
silver H&E NCBI GEO policy
Cite this collection
No linked publication found — please cite the data source.