Mouse bone tissue
GSM9564257
mouse bone tissue lung carcinoma 30.2 MB 2,022 spots bronze H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuebone tissue
Conditionlung carcinoma
Spots2,022
bronze H&E NCBI GEO policy
Collections / Single-cell and Spatial Transcriptomic Profiling of the Bone Metastatic Microenvironment
Single-cell and Spatial Transcriptomic Profiling of the Bone Metastatic Microenvironment
The goal of this study is to comprehensively characterize the cellular composition, transcriptional programs, and spatial organization of the bone metastatic microenvironment and to assess how therapeutic perturbation influences tumor–microenvironment interactions. A mouse bone metastasis model was established via internal iliac artery injection of Lewis lung carcinoma cells, and metastatic lesions were monitored by in vivo imaging. Single-cell RNA sequencing and 10x Genomics Visium–based spatial transcriptomics were generated from metastatic bone tissues to provide complementary cellular and spatial resolution.
Datasets4
Size~104 MB
AssayVisium
Samplemouse · bone tissue
KindOther
Download the whole collection
Python · sddb client
from sddb import Catalog
cohort = Catalog().collection("geo-gse323357")
cohort.members # the 4 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-gse323357")
coll.ordered_artifacts.to_dataframe() # the 4 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-gse323357 --dest data/Licenses: 4 NCBI GEO policy
Member datasets · 4
Mouse bone tissue
GSM9564255
mouse bone tissue lung carcinoma 17.4 MB 2,212 spots bronze H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuebone tissue
Conditionlung carcinoma
Spots2,212
bronze H&E NCBI GEO policy
Mouse bone tissue
GSM9564258
mouse bone tissue lung carcinoma 26.5 MB 2,153 spots bronze H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuebone tissue
Conditionlung carcinoma
Spots2,153
bronze H&E NCBI GEO policy
Mouse bone tissue
GSM9564256
mouse bone tissue lung carcinoma 29.3 MB 1,869 spots bronze H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissuebone tissue
Conditionlung carcinoma
Spots1,869
bronze H&E NCBI GEO policy
Cite this collection
No linked publication found — please cite the data source.