Transcriptomic profiling of cardiac tissues from SARS-CoV-2 patients identifies DNA damage(Dataset ID: STDS0000158)

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PMID: 36107637
Summary
Visualization
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Dataset information
Summary:
In this study, we investigated the landscape of cardiac tissues collected at rapid autopsy from 7 SARS-CoV-2, 2 pH1N1, and 6 control patients using targeted spatial transcriptomics approaches. The main outcomes for the study were to profile rapid autopsy samples collected from the COVID-19, pH1N1 and normal, non-viral deaths to determine transcriptional changes between the different cohorts. Although SARS-CoV-2 was not detected in cardiac tissue, host transcriptomics showed upregulation of genes associated with DNA damage and repair, heat shock, and M1-like macrophage infiltration in the cardiac tissues of COVID-19 patients. The DNA damage present in the SARS-CoV-2 patient samples, were further confirmed by g-H2Ax immunohistochemistry. In comparison, pH1N1 showed upregulation of Interferon-stimulated genes (ISGs), in particular interferon and complement pathways, when compared with COVID-19 patients.
Overall design:
In this dataset, we capture GeoMx DSP RNA profiles of myocardial tissue from SARS-CoV2 infected patients aswell as pH1N1 and control specimens
Technology:
GeoMx DSP
Platform:
Illumina NovaSeq 6000 (Homo sapiens), Illumina NovaSeq 6000 (blank sample)
Species:
Homo sapiens
Tissues:
Heart
Organ parts:
Myocardium
Disease:
COVID-19
Submission date: 2022-08-26Update date: 2022-10-28
Sample number: 50
DOI: To be continue
Contributors
Kulasinghe, A K,Tan, C W
Accessions
GEO Series Accessions: GSE212119
How to cite
  • Cite database of STOmicsDB:
    [1] Xu, Zhicheng et al. "STOmicsDB: a comprehensive database for spatial transcriptomics data sharing, analysis and visualization." Nucleic acids research vol. 52,D1 (2024): D1053-D1061. doi: 10.1093/nar/gkad933'
  • Cite visualization dataset:
    [2] Kulasinghe, A K,Tan, C W. Transcriptomic profiling of cardiac tissues from SARS-CoV-2 patients identifies DNA damage[DS/OL]. STOmicsDB, 2022[2022-08-26]. https://db.cngb.org/stomics/datasets/STDS0000158/. doi: xxxxxx
    #Format: {contributors}. {title}[DS/OL]. STOmicsDB, {the year of submission data}[{submission data}]. {dataset link}. doi: {doi ID}
  • Cite original data article:
    Citation: Kulasinghe, Arutha et al. “Transcriptomic profiling of cardiac tissues from SARS-CoV-2 patients identifies DNA damage.” Immunology vol. 168,3 (2023): 403-419. doi:10.1111/imm.13577