Single Cell and Spatial Analysis of Human Squamous Cell Carcinoma [ST](Dataset ID: STDS0000177)

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1,526
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4,845
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Spots: 40,824
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Genes: 33,538
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PMID: 32579974
Summary
Visualization
Data
Analysis results
Related
Sample
Catalog
Dataset information
Contributors
Accessions
How to cite
Dataset information
Summary:
To define the cellular composition and spatial architecture of the tumor micoenvironment, we combined single-cell RNA-sequencing, spatial transcriptomics, and multiplexed ion-beam imaging from 10 patient cutaneous squamous cell carcinoma tumors and site-matched normal skin
Overall design:
Patient tumors were fresh frozen and sectioned at 10um thickness onto spatial transcriptomics (ST) slides for mRNA capture, followed by library preparation and sequencing
Technology:
Spatial Transcriptomics,10x Visium
Platform:
Illumina NextSeq 500
Species:
Homo sapiens(hg38)
Tissues:
Skin
Organ parts:
Squamous Cell Carcinoma
Submission date: 2020-01-24Update date: 2022-05-02
Sample number: 28Section number: 28
DOI: To be continue
Contributors
Ji, Andrew,Ji, Andrew L,Rubin, Adam J
Accessions
GEO Series Accessions: GSE144239
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] Ji, Andrew,Ji, Andrew L,Rubin, Adam J. Single Cell and Spatial Analysis of Human Squamous Cell Carcinoma [ST][DS/OL]. STOmicsDB, 2020[2020-01-24]. https://db.cngb.org/stomics/datasets/STDS0000177/. 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: Ji, Andrew L et al. “Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma.” Cell vol. 182,2 (2020): 497-514.e22. doi:10.1016/j.cell.2020.05.039