Collections / In vivo macrophage engineering reshapes the tumor microenvironment leading to eradication of liver metastases [Visium]

In vivo macrophage engineering reshapes the tumor microenvironment leading to eradication of liver metastases [Visium]

Liver metastases are associated with poor response to current pharmacological treatments, including immunotherapy. We describe a lentiviral vector (LV) platform to selectively engineer liver macrophages, including Kupffer cells and tumor-associated macrophages (TAMs), to deliver type I interferon (IFNα) to liver metastases. Gene-based IFNα delivery delays the growth of colorectal and pancreatic ductal adenocarcinoma liver metastases in mice. Response to IFNα is associated with TAM immune activation, enhanced MHC-II-restricted antigen presentation and reduced exhaustion of CD8+ T cells. Conversely, increased IL-10 signaling, expansion of Eomes CD4+ T cells, a cell type displaying features of type I regulatory T (Tr1) cells, and CTLA-4 expression are associated with resistance to therapy. Targeting regulatory T cell functions by combinatorial CTLA-4 immune checkpoint blockade and IFNα LV delivery expands tumor-reactive T cells, attaining complete response in most mice. These findings support a promising therapeutic strategy with feasible translation to patients with unmet medical need.

Datasets8
Size~201 MB
AssayVisium
Samplemouse · liver
KindComparison
Flag a data issue
PMID:37863068 ↗
Python · sddb client
from sddb import Catalog

cohort = Catalog().collection("geo-gse221359")
cohort.members        # the 8 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-gse221359")
coll.ordered_artifacts.to_dataframe()   # the 8 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-gse221359 --dest data/

Licenses: 8 NCBI GEO policy

Open in Vitessce
Visium
Mouse liver
GSM6859067
mouse liver colorectal cancer 24.8 MB 1,284 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditioncolorectal cancer
Size24.8 MB
Spots1,284
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM6859071
mouse liver colorectal cancer 24.3 MB 1,158 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditioncolorectal cancer
Size24.3 MB
Spots1,158
silver H&E NCBI GEO policy Open in Vitessce
Visium
Mouse liver
GSM6859073
mouse liver colorectal cancer 26.4 MB 1,544 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditioncolorectal cancer
Size26.4 MB
Spots1,544
silver H&E NCBI GEO policy
Open in Vitessce
Visium
Mouse liver
GSM6859068
mouse liver colorectal cancer 28.0 MB 1,818 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditioncolorectal cancer
Size28.0 MB
Spots1,818
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM6859070
mouse liver colorectal cancer 28.0 MB 1,494 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditioncolorectal cancer
Size28.0 MB
Spots1,494
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM6859069
mouse liver colorectal cancer 23.1 MB 1,044 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditioncolorectal cancer
Size23.1 MB
Spots1,044
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM6859066
mouse liver colorectal cancer 15.3 MB 734 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditioncolorectal cancer
Size15.3 MB
Spots734
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM6859072
mouse liver colorectal cancer 31.4 MB 1,843 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditioncolorectal cancer
Size31.4 MB
Spots1,843
silver H&E NCBI GEO policy Open in Vitessce

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