Visium HD Human lung
GSM8721365
human lung interstitial lung disease 143 MB 317,761 obs silver H&E
TechnologyVisium HD
Organismhuman
Tissuelung
Conditioninterstitial lung disease
Obs317,761
silver H&E
Collections / Spatial transcriptomic profiling of the lung tissues from a patient with recurrent anti-synthetase syndrome associated interstitial lung disease after bilateral lung transplantation and one untreated patient
Spatial transcriptomic profiling of the lung tissues from a patient with recurrent anti-synthetase syndrome associated interstitial lung disease after bilateral lung transplantation and one untreated patient
Background: A 58-year-old male with anti-synthetase syndrome-associated interstitial lung disease (ASS-ILD) underwent bilateral lung transplantation (LTx) but experienced ILD progression and myositis worsening 38 weeks post-transplant, despite glucocorticoids, tacrolimus, and mycophenolic acid treatment. High-dose glucocorticoids led to adverse effects and ILD exacerbation upon tapering. Objective: To identify persistent inflammatory pathways despite anti-rejection therapy. Methods: 10X Visium HD spatial transcriptomic analysis was conducted on lung tissues from two distinct patients: one untreated patient with ASS-ILD without LTx serving as a control, and another patient who experienced bilateral LTx. This analysis aims to investigate the inflammatory profiles within the lung tissues and to explore the correlation between pulmonary lesions and systemic inflammation. Results: In comparison to the control patient, the lung tissue from the post-transplant patient appeared to have an increased proportion of macrophages, with a concurrent decrease in the proportions of plasma cells and T cells. Among the macrophages of interest, the post-transplant patient appeared to have an elevated proportion of alveolar macrophages, whereas the control patient seemed to have a larger proportion of monocyte-derived macrophages. Considering that interstitial pneumonia is often driven by alveolar epithelial cell injury, we observed that the post-transplant patient appeared to have a higher proportion of transitional AT2 cells, which were appeared to express both AT2-specific markers (SFTPC, SFTPD) and AT1-specific markers (AGER, RTKN2, GPRC5A). Conclusions: We presented a complicated case of a patient with early recurrence of underlying ASS-ILD after bilateral LTx. We used spatial transcriptomic analysis to investigate the differences between systemic inflammatory responses and lung tissue responses.
Datasets2
Size~313 MB
AssayVisium HD
Samplehuman · lung
KindOther
Download the whole collection
Python · lamindb
import lamindb as ln
import spatialdata as sd
coll = ln.Collection.get(key="geo-gse286227")
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()}Member datasets · 2
