Collections / geo-gse333479

geo-gse333479

Datasets21
Size~3.1 GB
AssayStereo-seq
Samplemouse · multiple
KindOther
Flag a data issue
Download the whole collection
Python · sddb client 
from sddb import Catalog

cohort = Catalog().collection("geo-gse333479")
cohort.members        # the 21 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/")
Install (Python 3.12+) Docs →
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-gse333479")
coll.ordered_artifacts.to_dataframe()   # the 21 members, ordered

# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()]
Install (Python 3.12+) Docs →
Shell 
# sddb client: download every member .zarr into data/
sddb-cli download --collection geo-gse333479 --dest data/
Install (Python 3.12+) Docs →

Licenses: 21 NCBI GEO policy

Member datasets · 21
Open in Vitessce
Stereo-seq
Mouse skin of body
GSM9765777
mouse skin of body 49.2 MB 23,806 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissueskin of body
Size49.2 MB
Obs23,806
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse kidney
GSM9765775
mouse kidney 157 MB 156,908 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuekidney
Size157 MB
Obs156,908
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse spleen
GSM9765783
mouse spleen 52.4 MB 12,667 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuespleen
Size52.4 MB
Obs12,667
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse kidney
GSM9765776
mouse kidney 66.2 MB 66,851 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuekidney
Size66.2 MB
Obs66,851
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse brain
GSM9765773
mouse brain 227 MB 106,238 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuebrain
Size227 MB
Obs106,238
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse brain
GSM9765774
mouse brain 252 MB 113,170 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuebrain
Size252 MB
Obs113,170
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse thymus
GSM9765779
mouse thymus 61.4 MB 24,315 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuethymus
Size61.4 MB
Obs24,315
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse brain
GSM9765772
mouse brain 235 MB 108,434 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuebrain
Size235 MB
Obs108,434
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse thymus
GSM9765780
mouse thymus 90.1 MB 20,196 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuethymus
Size90.1 MB
Obs20,196
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse thymus
GSM9765781
mouse thymus 68.8 MB 17,760 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuethymus
Size68.8 MB
Obs17,760
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse testis
GSM9765788
mouse testis 268 MB 140,228 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuetestis
Size268 MB
Obs140,228
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse uterus
GSM9765785
mouse uterus 59.5 MB 12,941 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissueuterus
Size59.5 MB
Obs12,941
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse uterus
GSM9765786
mouse uterus 39.2 MB 13,325 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissueuterus
Size39.2 MB
Obs13,325
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse skin of body
GSM9765778
mouse skin of body 50.0 MB 24,885 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissueskin of body
Size50.0 MB
Obs24,885
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse testis
GSM9765787
mouse testis 425 MB 148,070 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuetestis
Size425 MB
Obs148,070
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse spleen
GSM9765782
mouse spleen 106 MB 16,053 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuespleen
Size106 MB
Obs16,053
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse lung
GSM9765784
mouse lung 385 MB 110,554 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuelung
Size385 MB
Obs110,554
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse large intestine
GSM9765770
mouse large intestine 143 MB 28,685 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuelarge intestine
Size143 MB
Obs28,685
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse ovary
GSM9765790
mouse ovary 72.0 MB 46,599 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissueovary
Size72.0 MB
Obs46,599
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse large intestine
GSM9765771
mouse large intestine 56.3 MB 29,310 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissuelarge intestine
Size56.3 MB
Obs29,310
bronze NCBI GEO policy Open in Vitessce
Open in Vitessce
Stereo-seq
Mouse ovary
GSM9765789
mouse ovary 219 MB 51,698 obs bronze NCBI GEO policy
TechnologyStereo-seq
Organismmouse
Tissueovary
Size219 MB
Obs51,698
bronze NCBI GEO policy Open in Vitessce