Collections / Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [Spatial Transcriptomics]

Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [Spatial Transcriptomics]

Datasets2
Size~1.4 GB
AssayVisium
Samplehuman · liver
KindReplicates
10.1101/2022.11.09.515839 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="doi-10.1101/2022.11.09.515839")
coll.ordered_artifacts.df()                 # the 2 members, ordered

# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()]

# …or load each straight into memory as a SpatialData object:
sdatas = {a.key: sd.read_zarr(a.cache()) for a in coll.ordered_artifacts.all()}
About the study

TREM1 <sup>+</sup> regulatory myeloid cells expand in steatohepatitis-HCC and associate with poor prognosis and therapeutic resistance to immune checkpoint blockade

Read the abstract at the source →
Member datasets · 2
Open in Vitessce
Visium
Human liver
NCBI642
human liver hepatocellular carcinoma 742 MB 1,987 obs silver H&E
TechnologyVisium
Organismhuman
Tissueliver
Conditionhepatocellular carcinoma
Size742 MB
Obs1,987
Magnification20x · 0.453 µm/px
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human liver
NCBI643
human liver hepatocellular carcinoma 716 MB 2,261 obs silver H&E
TechnologyVisium
Organismhuman
Tissueliver
Conditionhepatocellular carcinoma
Size716 MB
Obs2,261
Magnification20x · 0.454 µm/px
silver H&E Open in Vitessce

Cite this collection

doi.org/10.1101/2022.11.09.515839 ↗
BibTeX 
@article{Giraud_2022,
  title = {TREM1
                  <sup>+</sup>
                  regulatory myeloid cells expand in steatohepatitis-HCC and associate with poor prognosis and therapeutic resistance to immune checkpoint blockade},
  url = {http://dx.doi.org/10.1101/2022.11.09.515839},
  DOI = {10.1101/2022.11.09.515839},
  publisher = {openRxiv},
  author = {Giraud, Julie and Chalopin, Domitille and Ramel, Eloïse and Boyer, Thomas and Zouine, Atika and Derieppe, Marie-Alix and Larmonier, Nicolas and Adotevi, Olivier and Bail, Brigitte Le and Blanc, Jean-Frédéric and Chiche, Laurence and Nikolski, Macha and Saleh, Maya},
  year = {2022},
  month = Nov
}