Mapping the Spatial Dynamics of the Human Oral Mucosa in Chronic Inflammatory Disease(Dataset ID: STDS0000210)

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Spots: 39,936
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Genes: 36,945
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PMID: 36648332
Summary
Visualization
Data
Analysis results
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Dataset information
Summary:
The interplay among different cells in a tissue is essential for maintaining homeostasis. Although, disease states have been traditionally attributed to individual cell types, increasing evidence and new therapeutic options have demonstrated the primary role of multicellular functions to understand health and disease, opening new avenues to understand pathogenesis and develop new treatment strategies. We recently described the cellular composition and dynamics of the human oral mucosa; however, the spatial arrangement of cells is needed to better understand a morphologically complex tissue. Here, we link single-cell RNA sequencing, spatial transcriptomics, and high-resolution multiplex fluorescence in situ hybridisation to characterise human oral mucosa in health and oral chronic inflammatory disease. We define highly specialised epithelial and stromal compartments and describe location-specific immune programs. Furthermore, we discovered fine regional fibroblast states, and spatially mapped a rare pathogenic population localised in a highly immunogenic region, responsible for lymphocyte recruitment through CXCL8 and CXCL10 and with a possible role in pathological angiogenesis through ALOX5AP. Collectively, our study provides a comprehensive reference for the study of oral chronic disease pathogenesis.
Overall design:
Adult oral mucosa tissue sections from healthy and periodontitis affected individuals were subjected to spatial transcriptomics analyses.
Technology:
10x Visium
Platform:
Illumina NextSeq 500
Species:
Homo sapiens(hg38)
Tissues:
Mucosa
Organ parts:
Oral mucosa
Submission date: 2022-06-22Update date: 2023-02-02
Sample number: 8Section number: 8
DOI: To be continue
Contributors
Sharpe, Paul,Caetano, A J,Redhead, Y,Karim, F,Dhami, P,Kannambath, S,Nuamah, R,Volponi, A A,Nibali,
Accessions
GEO Series Accessions: GSE206621
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] Sharpe, Paul,Caetano, A J,Redhead, Y,Karim, F,Dhami, P,Kannambath, S,Nuamah, R,Volponi, A A,Nibali, . Mapping the Spatial Dynamics of the Human Oral Mucosa in Chronic Inflammatory Disease[DS/OL]. STOmicsDB, 2022[2022-06-22]. https://db.cngb.org/stomics/datasets/STDS0000210/. 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: Caetano, Ana J et al. “Spatially resolved transcriptomics reveals pro-inflammatory fibroblast involved in lymphocyte recruitment through CXCL8 and CXCL10.” eLife vol. 12 e81525. 17 Jan. 2023, doi:10.7554/eLife.81525