Spatial transcriptomics of human brain metastases(Dataset ID: STDS0000092)

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Spots: 12,566
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Genes: 36,601
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PMID: 35707680
Summary
Visualization
Data
Analysis results
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Dataset information
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How to cite
Dataset information
Summary:
Spatial transcriptomics of six surgically-resected human brain metastasis samples
Overall design:
After surgical resection, parts of six human brain metastases were embedded in OCT and frozen in a dry ice/2-methylbutane bath. 10 脦录M sections were placed on Visium gene expression slides which were stored at -80C until use. Slides were methanol fixed and stained with H&E and imaged at 10x on a Biotek Lionheart microscope. Tissues were permeabilized and libraries generated according to the manufacturer's protocols. Images for all samples are available in all_spatial_images.tar.gz.
Technology:
10x Visium
Platform:
GPL24676
Species:
Homo sapiens(hg38)
Tissues:
Brain
Submission date: 2021-07-06Update date: 2021-08-06
DOI: To be continue
Contributors
William H Hudson
Accessions
GEO Series Accessions: GSE179572
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] William H Hudson. Spatial transcriptomics of human brain metastases[DS/OL]. STOmicsDB, 2021[2021-07-06]. https://db.cngb.org/stomics/datasets/STDS0000092/. 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: Hudson, William H, and Lisa J Sudmeier. “Localization of T cell clonotypes using the Visium spatial transcriptomics platform.” STAR protocols vol. 3,2 101391. 10 Jun. 2022, doi:10.1016/j.xpro.2022.101391